source stringclasses 1
value | repo stringlengths 5 63 | repo_url stringlengths 24 82 | path stringlengths 5 167 | language stringclasses 1
value | license stringclasses 5
values | stars int64 10 51.4k | ref stringclasses 23
values | size_bytes int64 200 258k | text stringlengths 137 258k |
|---|---|---|---|---|---|---|---|---|---|
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/bostau4_spec.rb | Ruby | mit | 19 | master | 21,940 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::BosTau4" do
before(:all) do
Bio::Ucsc::BosTau4::DBConnection.connect
end
describe "Bio::Ucsc::BosTau4::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::BosTau4::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/find_by_and_spec.rb | Ruby | mit | 19 | master | 637 | require "bio-ucsc"
describe "Bio::Ucsc::Hg19::Snp132" do
describe ".find_all_by_bin_and_strand" do
context "given 'chr17:7,579,614-7,579,700' and '+'" do
it 'returns records' do
Bio::Ucsc::Hg19::DBConnection.connect
gi = Bio::GenomicInterval.parse("chr17:7,579,614-7,579,700")
resul... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/go_spec.rb | Ruby | mit | 19 | master | 4,726 | describe "Bio::Ucsc::Go" do
before(:all) do
Bio::Ucsc::Go::DBConnection.connect
end
describe "Bio::Ucsc::Go::Association" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Go::Association.first
pp result
result.should be_true
end
end
e... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/genomic-interval-bin_spec.rb | Ruby | mit | 19 | master | 592 | require "bio-ucsc"
describe "Bio::GenomicInterval" do
describe ".bin_all" do
context "given 'chr17:7,579,614-7,579,700'" do
it 'returns all bins to search ([642, 80, 9, 1, 0])' do
gi = Bio::GenomicInterval.parse("chr17:7,579,614-7,579,700")
gi.bin_all.should == [642, 80, 9, 1, 0]
end... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/mm10_spec.rb | Ruby | mit | 19 | master | 23,225 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Mm10" do
before(:all) do
Bio::Ucsc::Mm10::DBConnection.connect
end
describe "Bio::Ucsc::Mm10::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Mm10::All_est.first
pp result
result.sho... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/ponabe2_spec.rb | Ruby | mit | 19 | master | 23,679 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::PonAbe2" do
before(:all) do
Bio::Ucsc::PonAbe2::DBConnection.connect
end
describe "Bio::Ucsc::PonAbe2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::PonAbe2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/susscr2_spec.rb | Ruby | mit | 19 | master | 14,792 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::SusScr2" do
before(:all) do
Bio::Ucsc::SusScr2::DBConnection.connect
end
describe "Bio::Ucsc::SusScr2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::SusScr2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/fr2_spec.rb | Ruby | mit | 19 | master | 20,206 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Fr2" do
before(:all) do
Bio::Ucsc::Fr2::DBConnection.connect
end
describe "Bio::Ucsc::Fr2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Fr2::All_est.first
pp result
result.should ... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/caepb2_spec.rb | Ruby | mit | 19 | master | 12,200 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::CaePb2" do
before(:all) do
Bio::Ucsc::CaePb2::DBConnection.connect
end
describe "Bio::Ucsc::CaePb2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::CaePb2::All_est.first
pp result
re... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/caerem3_spec.rb | Ruby | mit | 19 | master | 12,534 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::CaeRem3" do
before(:all) do
Bio::Ucsc::CaeRem3::DBConnection.connect
end
describe "Bio::Ucsc::CaeRem3::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::CaeRem3::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/droyak2_spec.rb | Ruby | mit | 19 | master | 13,559 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DroYak2" do
before(:all) do
Bio::Ucsc::DroYak2::DBConnection.connect
end
describe "Bio::Ucsc::DroYak2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DroYak2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/ornana1_spec.rb | Ruby | mit | 19 | master | 23,446 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::OrnAna1" do
before(:all) do
Bio::Ucsc::OrnAna1::DBConnection.connect
end
describe "Bio::Ucsc::OrnAna1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::OrnAna1::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/apimel2_spec.rb | Ruby | mit | 19 | master | 12,814 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::ApiMel2" do
before(:all) do
Bio::Ucsc::ApiMel2::DBConnection.connect
end
describe "Bio::Ucsc::ApiMel2::ChainDm2" do
context ".find_by_interval (Group1)" do
it 'returns the first records' do
gi = Bio::GenomicInterval.parse("Group1:1-10,0... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/drogri1_spec.rb | Ruby | mit | 19 | master | 10,969 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DroGri1" do
before(:all) do
Bio::Ucsc::DroGri1::DBConnection.connect
end
describe "Bio::Ucsc::DroGri1::Author" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DroGri1::Author.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/schema_spec.rb | Ruby | mit | 19 | master | 7,107 | describe "Bio::Ucsc::Schema" do
describe "Variables" do
context '#["hg"]=["hg18", "hg19"]' do
it '["hg"] returns a hash "hg" => ["hg18", "hg19"]' do
o = Bio::Ucsc::Schema::Variables.new
o["hg"] = ["hg18", "hg19"]
o["hg"].should == ["hg18", "hg19"]
end
end
context '#[... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/cb3_spec.rb | Ruby | mit | 19 | master | 15,300 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Cb3" do
before(:all) do
Bio::Ucsc::Cb3::DBConnection.connect
end
describe "Bio::Ucsc::Cb3::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Cb3::All_est.first
pp result
result.should ... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/mondom5_spec.rb | Ruby | mit | 19 | master | 29,510 | require "bio-ucsc"
describe "Bio::Ucsc::MonDom5" do
before(:all) do
Bio::Ucsc::MonDom5::DBConnection.connect
end
describe "Bio::Ucsc::MonDom5::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::MonDom5::All_est.first
pp result
result.shou... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/danrer7_spec.rb | Ruby | mit | 19 | master | 10,765 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DanRer7" do
before(:all) do
Bio::Ucsc::DanRer7::DBConnection.connect
end
describe "Bio::Ucsc::DanRer7::ChainGasAcu1" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DanRer7::ChainGasAcu1.first
#pp res... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/canfam2_spec.rb | Ruby | mit | 19 | master | 28,156 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::CanFam2" do
before(:all) do
Bio::Ucsc::CanFam2::DBConnection.connect
end
describe "Bio::Ucsc::CanFam2::All_bacends" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::CanFam2::All_bacends.first
pp resul... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/aplcal1_spec.rb | Ruby | mit | 19 | master | 11,762 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::AplCal1" do
before(:all) do
Bio::Ucsc::AplCal1::DBConnection.connect
end
describe "Bio::Ucsc::AplCal1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::AplCal1::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/drosim1_spec.rb | Ruby | mit | 19 | master | 14,261 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DroSim1" do
before(:all) do
Bio::Ucsc::DroSim1::DBConnection.connect
end
describe "Bio::Ucsc::DroSim1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DroSim1::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/cavpor3_spec.rb | Ruby | mit | 19 | master | 20,932 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::CavPor3" do
before(:all) do
Bio::Ucsc::CavPor3::DBConnection.connect
end
describe "Bio::Ucsc::CavPor3::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::CavPor3::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/drosec1_spec.rb | Ruby | mit | 19 | master | 10,969 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DroSec1" do
before(:all) do
Bio::Ucsc::DroSec1::DBConnection.connect
end
describe "Bio::Ucsc::DroSec1::Author" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DroSec1::Author.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/caljac3_spec.rb | Ruby | mit | 19 | master | 20,474 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::CalJac3" do
before(:all) do
Bio::Ucsc::CalJac3::DBConnection.connect
end
describe "Bio::Ucsc::CalJac3::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::CalJac3::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/dromoj2_spec.rb | Ruby | mit | 19 | master | 11,933 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DroMoj2" do
before(:all) do
Bio::Ucsc::DroMoj2::DBConnection.connect
end
describe "Bio::Ucsc::DroMoj2::All_mrna" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DroMoj2::All_mrna.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/orycun2_spec.rb | Ruby | mit | 19 | master | 18,283 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::OryCun2" do
before(:all) do
Bio::Ucsc::OryCun2::DBConnection.connect
end
describe "Bio::Ucsc::OryCun2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::OryCun2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/rhemac2_spec.rb | Ruby | mit | 19 | master | 23,617 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::RheMac2" do
before(:all) do
Bio::Ucsc::RheMac2::DBConnection.connect
end
describe "Bio::Ucsc::RheMac2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::RheMac2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/oviari1_spec.rb | Ruby | mit | 19 | master | 15,793 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::OviAri1" do
before(:all) do
Bio::Ucsc::OviAri1::DBConnection.connect
end
describe "Bio::Ucsc::OviAri1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::OviAri1::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/caejap1_spec.rb | Ruby | mit | 19 | master | 12,534 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::CaeJap1" do
before(:all) do
Bio::Ucsc::CaeJap1::DBConnection.connect
end
describe "Bio::Ucsc::CaeJap1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::CaeJap1::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/ce6_spec.rb | Ruby | mit | 19 | master | 29,770 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Ce6" do
before(:all) do
Bio::Ucsc::Ce6::DBConnection.connect
end
describe "Bio::Ucsc::Ce6::T25mersRepeats" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Ce6::T25mersRepeats.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/uniprot_spec.rb | Ruby | mit | 19 | master | 8,926 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::UniProt" do
before(:all) do
Bio::Ucsc::UniProt::DBConnection.connect
end
describe "Bio::Ucsc::UniProt::AccToKeyword" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::UniProt::AccToKeyword.first
pp res... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/orylat2_spec.rb | Ruby | mit | 19 | master | 22,183 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::OryLat2" do
before(:all) do
Bio::Ucsc::OryLat2::DBConnection.connect
end
describe "Bio::Ucsc::OryLat2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::OryLat2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/xentro2_spec.rb | Ruby | mit | 19 | master | 21,498 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::XenTro2" do
before(:all) do
Bio::Ucsc::XenTro2::DBConnection.connect
end
describe "Bio::Ucsc::XenTro2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::XenTro2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/droere1_spec.rb | Ruby | mit | 19 | master | 11,933 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DroEre1" do
before(:all) do
Bio::Ucsc::DroEre1::DBConnection.connect
end
describe "Bio::Ucsc::DroEre1::All_mrna" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DroEre1::All_mrna.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/ci2_spec.rb | Ruby | mit | 19 | master | 11,744 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Ci2" do
before(:all) do
Bio::Ucsc::Ci2::DBConnection.connect
end
describe "Bio::Ucsc::Ci2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Ci2::All_est.first
pp result
result.should ... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/proteome_spec.rb | Ruby | mit | 19 | master | 8,099 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Proteome" do
before(:all) do
Bio::Ucsc::Proteome::DBConnection.connect
end
describe "Bio::Ucsc::Proteome::Hgnc" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Proteome::Hgnc.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgfixed_spec.rb | Ruby | mit | 19 | master | 28,585 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::HgFixed" do
before(:all) do
Bio::Ucsc::HgFixed::DBConnection.connect
end
describe "Bio::Ucsc::HgFixed::Affy10KDetails" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::HgFixed::Affy10KDetails.first
pp... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/mm9_spec.rb | Ruby | mit | 19 | master | 168,585 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Mm9" do
before(:all) do
Bio::Ucsc::Mm9::DBConnection.connect
end
describe "Bio::Ucsc::Mm9::NIAGene" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Mm9::NIAGene.first
pp result
result.should ... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/pantro3_spec.rb | Ruby | mit | 19 | master | 19,201 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::PanTro3" do
before(:all) do
Bio::Ucsc::PanTro3::DBConnection.connect
end
describe "Bio::Ucsc::PanTro3::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::PanTro3::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/visigene_spec.rb | Ruby | mit | 19 | master | 10,240 | require "bio-ucsc"
describe "Bio::Ucsc::VisiGene" do
before(:all) do
Bio::Ucsc::VisiGene::DBConnection.connect
end
describe "Bio::Ucsc::VisiGene::Allele" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::VisiGene::Allele.first
pp result
result.sh... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/droana2_spec.rb | Ruby | mit | 19 | master | 11,690 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DroAna2" do
before(:all) do
Bio::Ucsc::DroAna2::DBConnection.connect
end
describe "Bio::Ucsc::DroAna2::All_mrna" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DroAna2::All_mrna.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/rn5_spec.rb | Ruby | mit | 19 | master | 46,578 | describe "Bio::Ucsc::Rn5" do
before(:all) do
Bio::Ucsc::Rn5::DBConnection.connect
end
# describe "Bio::Ucsc::Rn5::AffyAllExonProbes" do
# context ".first" do
# it 'returns the first records' do
# result = Bio::Ucsc::Rn5::AffyAllExonProbes.first
# pp result
# result.should b... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/danrer10_spec.rb | Ruby | mit | 19 | master | 5,466 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DanRer10" do
before(:all) do
Bio::Ucsc::DanRer10::DBConnection.connect
end
describe "Bio::Ucsc::DanRer10::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DanRer10::All_est.first
#pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/tetnig2_spec.rb | Ruby | mit | 19 | master | 17,198 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::TetNig2" do
before(:all) do
Bio::Ucsc::TetNig2::DBConnection.connect
end
describe "Bio::Ucsc::TetNig2::All_mrna" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::TetNig2::All_mrna.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/anocar2_spec.rb | Ruby | mit | 19 | master | 17,009 | require "pp"
describe "Bio::Ucsc::AnoCar2" do
before(:all) do
Bio::Ucsc::AnoCar2::DBConnection.connect
end
describe "Bio::Ucsc::AnoCar2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::AnoCar2::All_est.first
pp result
result.should be_... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/chromosome_specific_tables_spec.rb | Ruby | mit | 19 | master | 928 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Hg18" do
before(:all) do
Bio::Ucsc::Hg18::DBConnection.connect
end
describe "Rmsk (separated Rmsk table)" do
describe ".find_by_interval" do
context "given 'chr1:10,000-20,000'" do
it 'returns a first hit record' do
gi = Bio:... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/ailmel1_spec.rb | Ruby | mit | 19 | master | 4,890 | describe "Bio::Ucsc::AilMel1" do
before(:all) do
Bio::Ucsc::AilMel1::DBConnection.connect
end
describe "Bio::Ucsc::AilMel1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::AilMel1::All_est.first
pp result
result.should be_truthy
e... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/reference_spec.rb | Ruby | mit | 19 | master | 4,288 | require 'bio-ucsc'
describe "Bio::Ucsc::Reference" do
describe ".load" do
context 'given "../samples/hg18.2bit"' do
it "returns a Bio::Ucsc::Reference object" do
ref = Bio::Ucsc::Reference.load("samples/hg18.2bit")
ref.should be_kind_of Bio::Ucsc::Reference
end
end
end
de... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/spec_helper.rb | Ruby | mit | 19 | master | 466 | $LOAD_PATH.unshift(File.join(File.dirname(__FILE__), '..', 'lib'))
$LOAD_PATH.unshift(File.dirname(__FILE__))
require 'rspec'
require 'bio-ucsc'
require 'pp'
ActiveSupport::Deprecation.silenced = true
# Requires supporting files with custom matchers and macros, etc,
# in ./support/ and its subdirectories.
Dir["#{File... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/travis-ci_spec.rb | Ruby | mit | 19 | master | 349 | require File.expand_path(File.dirname(__FILE__) + '/spec_helper')
describe "Bio::Ucsc::Hg19::Snp138" do
describe "#find_by_interval" do
it "returns an array of results with column accessors" do
Bio::Ucsc::Hg19.connect
r = Bio::Ucsc::Hg19::Snp138.find_by_interval("chr1:1-12,000")
r.chrom.should... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/gasacu1_spec.rb | Ruby | mit | 19 | master | 22,913 | describe "Bio::Ucsc::GasAcu1" do
before(:all) do
Bio::Ucsc::GasAcu1::DBConnection.connect
end
describe "Bio::Ucsc::GasAcu1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::GasAcu1::All_est.first
pp result
result.should be_true
end... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/loxafr3_spec.rb | Ruby | mit | 19 | master | 12,869 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::LoxAfr3" do
before(:all) do
Bio::Ucsc::LoxAfr3::DBConnection.connect
end
describe "Bio::Ucsc::LoxAfr3::All_mrna" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::LoxAfr3::All_mrna.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/connect-all_spec.rb | Ruby | mit | 19 | master | 3,194 | require 'bio-ucsc'
describe "#connection (using default parameters)" do
context "given no option" do
it "returns true" do
Bio::Ucsc::AilMel1.connect.should be_truthy
Bio::Ucsc::AnoCar2.connect.should be_truthy
Bio::Ucsc::AnoGam1.connect.should be_truthy
Bio::Ucsc::ApiMel2.connect.should be... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/relation_objects_spec.rb | Ruby | mit | 19 | master | 2,874 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Hg19" do
before(:all) do
Bio::Ucsc::Hg19::DBConnection.connect
end
describe "HapmapSnpsJPT (BED table)" do
describe ".with_interval" do
context "given 'chr1:50,000-100,00000'" do
it 'returns records' do
gi = Bio::GenomicInterv... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/droper1_spec.rb | Ruby | mit | 19 | master | 10,969 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DroPer1" do
before(:all) do
Bio::Ucsc::DroPer1::DBConnection.connect
end
describe "Bio::Ucsc::DroPer1::Author" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DroPer1::Author.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/felcat4_spec.rb | Ruby | mit | 19 | master | 18,227 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::FelCat4" do
before(:all) do
Bio::Ucsc::FelCat4::DBConnection.connect
end
describe "Bio::Ucsc::FelCat4::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::FelCat4::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/saccer2_spec.rb | Ruby | mit | 19 | master | 22,426 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::SacCer2" do
before(:all) do
Bio::Ucsc::SacCer2::DBConnection.connect
end
describe "Bio::Ucsc::SacCer2::T2micron_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::SacCer2::T2micron_est.first
pp res... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/pripac1_spec.rb | Ruby | mit | 19 | master | 15,286 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::PriPac1" do
before(:all) do
Bio::Ucsc::PriPac1::DBConnection.connect
end
describe "Bio::Ucsc::PriPac1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::PriPac1::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/drovir2_spec.rb | Ruby | mit | 19 | master | 12,648 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DroVir2" do
before(:all) do
Bio::Ucsc::DroVir2::DBConnection.connect
end
describe "Bio::Ucsc::DroVir2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DroVir2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/petmar1_spec.rb | Ruby | mit | 19 | master | 18,395 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::PetMar1" do
before(:all) do
Bio::Ucsc::PetMar1::DBConnection.connect
end
describe "Bio::Ucsc::PetMar1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::PetMar1::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/equcab2_spec.rb | Ruby | mit | 19 | master | 22,632 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::EquCab2" do
before(:all) do
Bio::Ucsc::EquCab2::DBConnection.connect
end
describe "Bio::Ucsc::EquCab2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::EquCab2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/galgal4_spec.rb | Ruby | mit | 19 | master | 35,655 | describe "Bio::Ucsc::GalGal4" do
before(:all) do
Bio::Ucsc::GalGal4::DBConnection.connect
end
# describe "Bio::Ucsc::GalGal4::All_bacends" do
# context ".first" do
# it 'returns the first records' do
# result = Bio::Ucsc::GalGal4::All_bacends.first
# pp result
# result.shou... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/danrer11_spec.rb | Ruby | mit | 19 | master | 4,993 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::DanRer11" do
before(:all) do
Bio::Ucsc::DanRer11::DBConnection.connect
end
describe "Bio::Ucsc::DanRer11::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::DanRer11::All_est.first
#pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/rn4_spec.rb | Ruby | mit | 19 | master | 44,393 | describe "Bio::Ucsc::Rn4" do
before(:all) do
Bio::Ucsc::Rn4::DBConnection.connect
end
describe "Bio::Ucsc::Rn4::AffyAllExonProbes" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Rn4::AffyAllExonProbes.first
pp result
result.should be_true
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/dp3_spec.rb | Ruby | mit | 19 | master | 14,418 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::Dp3" do
before(:all) do
Bio::Ucsc::Dp3::DBConnection.connect
end
describe "Bio::Ucsc::Dp3::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::Dp3::All_est.first
pp result
result.should ... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/anogam1_spec.rb | Ruby | mit | 19 | master | 13,743 | require "pp"
describe "Bio::Ucsc::AnoGam1" do
before(:all) do
Bio::Ucsc::AnoGam1::DBConnection.connect
end
describe "Bio::Ucsc::AnoGam1::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::AnoGam1::All_est.first
pp result
result.should be_... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/strpur2_spec.rb | Ruby | mit | 19 | master | 14,064 | require "bio-ucsc"
require "pp"
describe "Bio::Ucsc::StrPur2" do
before(:all) do
Bio::Ucsc::StrPur2::DBConnection.connect
end
describe "Bio::Ucsc::StrPur2::All_est" do
context ".first" do
it 'returns the first records' do
result = Bio::Ucsc::StrPur2::All_est.first
pp result
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg38/find_by_spec.rb | Ruby | mit | 19 | master | 5,621 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg38::* #find_by_spec" do
before(:all) do
Bio::Ucsc::Hg38.default
Bio::Ucsc::Hg38.connect
end
describe "Bio::Ucsc::Hg38::CytoBandIdeo (UsingChrom)" do
describe "#find_by_interval" do
context 'given range chr1:117,000,000-120,600,001 (1p13.1-p12-p11.2)... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg38/db_connection_spec.rb | Ruby | mit | 19 | master | 988 | #
# = /spec/hg38_spec.rb - Rspec specification for Ucsc::Hg38
#
# Copyright:: Copyright (C) 2011, 2014
# MISHIMA, Hiroyuki <missy at be.to / hmishima at nagasaki-u.ac.jp>
# License:: The MIT licence
require 'bio-ucsc'
describe "Bio::Ucsc::Hg38::DBConnection" do
describe ".new" do
context "... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg38/connect_spec.rb | Ruby | mit | 19 | master | 485 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg38" do
describe "#connection (using default parameters)" do
context "given no option" do
it "returns true" do
Bio::Ucsc::Hg38.default
Bio::Ucsc::Hg38.connect.should be_truthy
end
end
context "given fake server hostname" do
it "... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/transmapsrcmrna_spec.rb | Ruby | mit | 19 | master | 798 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::TransMapSrcSplicedMRna" do
describe "#find_by_interval" do
context "given range chr1:1-20,000" do
it "returns an array of results" do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
i = Bio::Genomic... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/gladhumesotherdata_spec.rb | Ruby | mit | 19 | master | 436 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::GladHumESOtherData" do
describe "#find_by_name" do
context 'given "1007_s_at"' do
it 'returns (r.tissueQ == "Spinal Cord")' do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
r = Bio::Ucsc::HgFixed::... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/gnfhumanatlas2allratio_spec.rb | Ruby | mit | 19 | master | 440 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::GnfHumanAtlas2AllRatio" do
describe "#find_by_name" do
context 'given "1007_s_at"' do
it 'returns (r.expScores =~ /\A0.908/)' do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
r = Bio::Ucsc::HgFixed... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/transmapsrcsplicedest_spec.rb | Ruby | mit | 19 | master | 805 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::TransMapSrcSplicedEst" do
describe "#find_by_interval" do
context "given range chr1:1-1,000" do
it "returns an array of results" do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
i = Bio::GenomicI... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/affyexps_spec.rb | Ruby | mit | 19 | master | 444 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::HgFixed_AffyExps" do
describe "#find_by_name" do
context 'given "H9SGK99092001_HUVEC3"' do
it 'returns (r.description == "HUVEC3")' do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
r = Bio::Ucsc::H... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/transmapsrcucscgenes_spec.rb | Ruby | mit | 19 | master | 800 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::TransMapSrcUcscGenes" do
describe "#find_by_interval" do
context "given range chr1:1-10,000" do
it "returns an array of results" do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
i = Bio::GenomicInt... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/transmapgeneucscgenes_spec.rb | Ruby | mit | 19 | master | 436 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::TransMapGeneUcscGenes" do
describe "#find_by_id" do
context 'given "uc001aaa.2"' do
it 'returns (r.geneName == "BC032353")' do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
r = Bio::Ucsc::HgFixed::... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/transmapsrcrefseq_spec.rb | Ruby | mit | 19 | master | 795 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::TransMapSrcRefSeq" do
describe "#find_by_interval" do
context "given range chr1:1-500,000" do
it "returns an array of results" do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
i = Bio::GenomicInte... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/gnfhumanatlas2median_spec.rb | Ruby | mit | 19 | master | 444 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::GnfHumanAtlas2Median" do
describe "#find_by_name" do
context 'given "1007_s_at"' do
it 'returns (r.expScores =~ /\A4532\.500/)' do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
r = Bio::Ucsc::HgFix... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/gnfhumanatlas2medianexps_spec.rb | Ruby | mit | 19 | master | 406 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::GnfHumanAtlas2MedianExps" do
describe "#find" do
context 'given 0' do
it 'returns (r.name == "fetal brain")' do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
r = Bio::Ucsc::HgFixed::GnfHumanAtlas2M... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/gnfhumanatlas2all_spec.rb | Ruby | mit | 19 | master | 416 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::GnfHumanAtlas2All" do
describe "#find_by_name" do
context 'given "1007_s_at"' do
it 'returns (r.expCount == 158)' do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
r = Bio::Ucsc::HgFixed::GnfHumanAt... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/encoderegioninfo_spec.rb | Ruby | mit | 19 | master | 408 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed::EncodeRegionInfo" do
describe "#find_by_name" do
context 'given "ENm001"' do
it 'returns (r.descr == "CFTR")' do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
r = Bio::Ucsc::HgFixed::EncodeRegionIn... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hgFixed/gnfhumanatlas2medianratio_spec.rb | Ruby | mit | 19 | master | 447 | require 'bio-ucsc'
describe "Bio::Ucsc::HgFixed_GnfHumanAtlas2MedianRatio" do
describe "#find_by_name" do
context 'given "1007_s_at"' do
it 'returns (r.expScores =~ /\A1\.230/)' do
Bio::Ucsc::HgFixed::DBConnection.default
Bio::Ucsc::HgFixed::DBConnection.connect
r = Bio::Ucsc::HgFi... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwhistonehreh3k27me3stdhotspotsrep2_spec.rb | Ruby | mit | 19 | master | 529 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwHistoneHreH3k27me3StdHotspotsRep2" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it 'returns a record (r.chrom == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwdnasehpfpkrep1_spec.rb | Ruby | mit | 19 | master | 803 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwDnaseHpfPkRep1" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it "returns an array of records" do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = Bio::GenomicInterva... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwtfbssaecctcfstdpkrep2_spec.rb | Ruby | mit | 19 | master | 505 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwTfbsSaecCtcfStdPkRep2" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it 'returns a record (r.chrom == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = Bio... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeopenchromfairea549pk_spec.rb | Ruby | mit | 19 | master | 814 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeOpenChromFaireA549Pk" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it "returns an array of records" do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = Bio::GenomicInt... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwdgfnhdfadhotspots_spec.rb | Ruby | mit | 19 | master | 497 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwDgfNhdfadHotspots" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it 'returns a record (r.chrom == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = Bio::Ge... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwhistoneaoafh3k4me3stdpkrep2_spec.rb | Ruby | mit | 19 | master | 517 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwHistoneAoafH3k4me3StdPkRep2" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it 'returns a record (r.chrom == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodebroadhistonehsmmh3k4me1stdpk_spec.rb | Ruby | mit | 19 | master | 515 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeBroadHistoneHsmmH3k4me1StdPk" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it 'returns a record (r.chrom == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i ... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwhistoneag04449h3k4me3stdpkrep2_spec.rb | Ruby | mit | 19 | master | 523 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwHistoneAg04449H3k4me3StdPkRep2" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it 'returns a record (r.chrom == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwaffyexonarrayhepg2simplesignalrep1_spec.rb | Ruby | mit | 19 | master | 860 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwAffyExonArrayHepg2SimpleSignalRep1" do
describe "#find_by_interval" do
context "given range chr1:1-20,000" do
it "returns an array of records" do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = ... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwaffyexonarrayk562simplesignalrep2_spec.rb | Ruby | mit | 19 | master | 857 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwAffyExonArrayK562SimpleSignalRep2" do
describe "#find_by_interval" do
context "given range chr1:1-20,000" do
it "returns an array of records" do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = B... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwtfbsaoafctcfstdpkrep2_spec.rb | Ruby | mit | 19 | master | 505 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwTfbsAoafCtcfStdPkRep2" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it 'returns a record (r.chrom == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = Bio... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwdgfth1hotspots_spec.rb | Ruby | mit | 19 | master | 491 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwDgfTh1Hotspots" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it 'returns a record (r.chrom == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = Bio::Genom... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/simplerepeat_spec.rb | Ruby | mit | 19 | master | 781 | !require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::SimpleRepeat" do
describe "#find_by_interval" do
context "given range chr1:1-200,000" do
it "returns an array of results" do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = Bio::GenomicInterval.parse("ch... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/gbstatus_spec.rb | Ruby | mit | 19 | master | 392 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::GbStatus" do
describe ".find_by_acc" do
context 'given "NM_001000000"' do
it 'returns (r[:type] == "mRNA")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
r = Bio::Ucsc::Hg19::GbStatus.find_by_acc("NM_001... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/wgencodeuwhistonehreh3k4me3stdhotspotsrep2_spec.rb | Ruby | mit | 19 | master | 527 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::WgEncodeUwHistoneHreH3k4me3StdHotspotsRep2" do
describe "#find_by_interval" do
context "given range chr1:1-800,000" do
it 'returns a record (r.chrom == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/netcaljac3_spec.rb | Ruby | mit | 19 | master | 483 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::NetCalJac3" do
describe "#find_by_interval" do
context 'given range chr1:1-20,000' do
it 'returns a record with column accessors (r.tName == "chr1")' do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = Bio... |
github | misshie/bioruby-ucsc-api | https://github.com/misshie/bioruby-ucsc-api | spec/hg19/rnacluster_spec.rb | Ruby | mit | 19 | master | 780 | require 'bio-ucsc'
describe "Bio::Ucsc::Hg19::RnaCluster" do
describe "#find_by_interval" do
context "given range chr1:1-1,000,000" do
it "returns an array of results" do
Bio::Ucsc::Hg19::DBConnection.default
Bio::Ucsc::Hg19::DBConnection.connect
i = Bio::GenomicInterval.parse("chr... |
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