sha256 stringlengths 64 64 | language stringclasses 27
values | size int32 1 491k | lines int32 1 21.8k | content stringlengths 1 200k |
|---|---|---|---|---|
ff590542bca360490256fff9a2ee35d23f5ca5afcf20e6fb5397f6ca76b86785 | SAS | 21,993 | 718 | *Note: this macro is not updated with newly created macros for downloading ucsc gene expression matrix;
*and the macro of importing single cell gene expression, making UMAP, and other visualizaiton macros;
*these new macros have been written for the STAR Protocol paper of COVID19_GWAS_Analyzer;
%macro ucsc_sc_analysis... |
7cddd26ef4a662f4ba65a377f6de0ce7a5e43ffc4131454cf96593990c3ab2c2 | SAS | 22,301 | 684 | %macro two_cohorts_mut_fisher_test(
dsdin=muts,/*Long format dsd only containing positve cases of target genes
Do not supply a long format dsd include all targeted controls and cases at the same time,
as the macro will count the occurrence of each gene in the input dsd and
determine the number of controls by sust... |
e4d9544c4af33eb81f308b45fee19b52d447c96edc4b8addc02a6b715022efc5 | SAS | 23,021 | 742 | * _\|/_
(o o)
+----oOO-{_}-OOo----------------------------------------------------------------------------+
: :
: MultiTranspose (version 1.0.3, F... |
a9e9b348d821dc93e1f47323baa052b0513bd2bd6059b17a7c020a5d21159e29 | SAS | 23,453 | 458 | %macro Long_format_muts2genetrack(
/*Note: several important parameters can adjust the label on the top:
yoffset4max_drawmarkersontop and Yoffset4textlabels can be used to enlarge the top regions covering the labels;
pct2adj4dencluster is able to increase the distance among these labels.
text_rotate_angle and pct... |
2f4014efeb58e38fd9979fe11b78297bc5d98b0322fbd5ddeb119dbae0a67fca | SAS | 23,913 | 781 | /***************************************************************************
Program Name: happy.sas
Program date: 23 Feb 2005
Programmer Name: Peter Kraft, modifying code by Rong Chen
Run proc haplotype and output the result from this procedure;
output the summary haploype and z score for haplotypes.
... |
f4ba8e0daa8a6f39febc66cc74670545e95aac9a4aded204103af7e26320524f | SAS | 24,298 | 661 | /* =========================================================
This macro produces the Laird and DerSimonian weighted
average of betas given several betas and their variances.
includes changes made by Polyna Khudyakova
(last change was done in August, 2015)
also, allows loglinear or linear models;
us... |
f1151c163c3e218e5da8e6afcc12bdb63640823b04fcf30186dd48ab13f50f8c | SAS | 24,476 | 541 | /*----------------------- Copyright 2016, Rho, Inc. All rights reserved. ------------------------\
Program: violinPlot.sas
Purpose: Generate violin plots in SAS
Output: violinPlot.(pdf png sas)
/---------------------------------------------------------------------------------------------\
Mac... |
c91f07d3903eb8c7e59485fd18892269fe2985a489e62b7329805f1b5d2529ee | SAS | 27,761 | 780 | %macro clustergram4sas(
/*In terms of longformat sas dataset, please consider
transforming it into a table using long2wide4multigrpsSameTypeVars!
The final rowlabels of the heatmap can be customized
when not clustering the final rowlabels by
pre-sorting the numeric_var names with two macros:
check_col_orders an... |
1408b10961b32b6fcc4dff2faa87b3fb424b69017ff35f0d53a81a4c08bd0d2e | SAS | 27,887 | 496 | %macro map_grp_assoc2gene4covidsexgwas(
/*Note: this macro uses a internal macro Multgscatter_with_gene_exons
Also, the macro will only focus on protein coding genes and its exons as demonstrated
at lines 125 in the macro as follows:
type in ("gene" "exon") and protein_coding=1
It is possible to focus on transcri... |
b1a3a3e6a498780f774f1ab543626f8a5f6d7bfa7b24890934632b46eddc8b59 | SAS | 28,798 | 855 | /* The main macro to produce the graphic */
%macro venn( data =
,venn_diagram = /* Select whether you want a 2 Way, 3 Way or 4 Way Venn Diagram
EG for 2 way enter 2. Valid values are 2,3 and 4 */
,cutoff = /* Set the P Value cut-... |
f76854abdeb618482d9bdd10ed1708e5ec406ed82e89591810ef9da306a2ef37 | SAS | 31,050 | 457 | %macro gene_track4gtf(
gtf_dsd=FM.GTF_HG19,/*the input gtf dsd can be generated by using the macro xx*/
gtf_chr_var=chr, /*chr var in gtf*/
gtf_st_var=st,/*start position var in gtf*/
gtf_end_var=end,/*end position var in gtf*/
chr_value=11, /*chromosome value for subset gtf*/
minst=119089629, /*start position fo... |
4cf2648a1721cd2bcad2d95af795987907d9435e78b9a46eabc1f1e2d1d7c0f6 | SAS | 31,872 | 1,810 | /*
The SAS macro HapReg implements the haplotype-based genetic association analysis
for case-control studies, using a flexible model for gene-environment association
allowing haplotypes to be potentially related with environmental exposures.
*/
%Macro HapReg(data, hdata, d, zsel, zgsel, zzsel, snp, rare, hs... |
0189854828bdc433a80dc36288bde96e559f4e075bdb0b7732037232915dfd8f | SAS | 32,102 | 543 | %macro SNP_Local_Manhattan_With_GTF(
/*Note: this macro can draw CNVs and SNVs together. Please ensure the macro variable
Variant_Length_Var is not empty, which contains distance of these CNVs (>1), with non-CNVs
assigned with missing value, and the middle positions of these CNVs is required to be
combined with th... |
1b431dfe269aed8f6c85d00e5ca47463ca61750bc5b19d7185191c3b3e077bdc | SAS | 32,529 | 635 | %macro Multgscatter_with_gene_exons(
bed_dsd=,/*This input dsd should contain association signals, but not
for gene bed regions; the name of the var should not be misunderstood!
It should contain the arbitrary vars: chr, st, and end
If the bed_dsd is missing, the macro will use the min and max position from
the g... |
a0d414f5b1ff3ff152de867e8e1982249909c17ceb81b658eaf98b58c149339b | SAS | 32,611 | 874 | /*
gwas_names:
Long COVID HGI - DF4 W1 => gwas number 91854
Long COVID HGI - DF4 N2 => gwas number 192226
Long COVID HGI - DF4 W2=> gwas number 826733
Long COVID HGI - DF4 N1=> gwas number 793752
Strict cases of long COVID after test-verified SARS-CoV-2 infection (n = 3,018) vs. general population controls (n =... |
99134460ac8b9517e76221f096639ceb7f920d57687a59b0c2464fba9e067a12 | SAS | 32,725 | 1,174 |
/*********************************************************************************
**********************************************************************************
** Copyright (C) 2018, Muthusi, Jacques **
** **
** Description : Generic SAS program to create publication ready tables from **
**... |
6db0465319fb667122dd4a504f3b9f00e66b381636f4d83c5d873c27d5deb064 | SAS | 35,275 | 581 | /*-----------------------------------------*
| Macro to generate a format of the form |
| 1 ="&val1" 2="&val2" ... |
| for observation labels on the y axis. |
*-----------------------------------------*/
%macro makefmt(nval);
%if &sysver < 6 & "&sysscp"="CMS"
%then %do;
... |
291e7249238c1e0d2ef105c7846ccc8abfcdbbefaf6d5de8873cf17c504f8b02 | SAS | 35,533 | 1,050 | %global chr_var;*Make sure we can asign new vale to it in some IF condition;
*This will be used by color macros for different chromosomes;
%global dotsize;
%macro Manhattan4DiffGWASs(
dsdin=,/*Input GWAS dataset with multiple GWAS p variables put in columns; it is ideal to have sorted GWAS by numeric chr and posi... |
fc4f1d29b641bf2d94390e7a6aad9d7211200545bcf971c4b0b414834befe80a | SAS | 35,879 | 1,086 | %macro Lattice_heatmap_over_bed_track(
/*This function was included into the sas macro Lattice_gscatter_over_bed_track.sas;
It is better to use Lattice_gscatter_over_bed_track.sas instead of this*/
bed_dsd,/*Too many bed regions (>1000) for the gene track will slow down the macro dramatically*/
chr_var,
st_var,
end_v... |
d62b47c0e3c221705ed4f5703fea6eb56524ad9c67c57face1dece753da97540 | SAS | 37,393 | 1,970 | /*
Updated by Zhongshan Cheng Jan-14-2024;
If the haplotype data is not supplied, the macro will estimate the haplotypes among the input genotype data;
and provide an initimation of haplotype frequencies;
The SAS macro HapRegNew implements the haplotype-based genetic association analysis
for case-control studie... |
63e291a90dc29ec402627418a862ca1958fc1ac1062055850bb9887017262681 | SAS | 46,029 | 1,309 | %macro Lattice_gscatter_over_bed_track_(/*Old macro without adding the textplot section for labeling selected dots in scatterplots*/
bed_dsd,
/*Too many bed regions (>1000) for the gene track will
slow down the macro dramatically;
Note: the macro will change the input bed_dsd
when supplying xaxis_viewmin and xax... |
6e3724a54a80ac00e4e4319881fddc6d75590aa675ff929f2fe6dc6430a7118e | SAS | 51,854 | 1,671 | /* %HPGLIMMIX macro */
*Example data set from here:;
*https://github.com/xieliaing/SAS/blob/master/GaussianProcess/Examples.sas;
/********************************************************************
%HPGLIMMIX: A SAS macro to fit generalized linear mixed model with
high dimensional fixed and/or random effect... |
7948274d010520cc2742472f666b9f12f2dc3028d0afd09ad73828ad9cf07d44 | SAS | 68,303 | 1,307 | /*
data random;
call streaminit(123);
do i=1 to 100;
u=rand("uniform");
u2=rand("uniform");
before=1+floor(14*u);
after=1+floor(14*u2);
output;
end;
drop i u u2;
run;
*Only two columns in random: before and after;
*Levels of before and after will be used for groups in the final circle plot;
*The link ... |
eb908c54f924f7b33fded72fb5eff3c79dda3fd66915ca1ceca758f412f3adef | SAS | 68,344 | 2,010 |
/*=======================DEMO or HpmixArray===============================*/
/* Adopted from */
/* Karine PIOT -- SEPT 2003 */
/* Christelle Hennequet-Antier -- March 2005 */
/* Dem... |
ffeec2f5631ce616d7efc136ee812387b6605b7b8f693ff6a520c7f3c060604c | SAS | 70,114 | 2,064 |
/*=======================DEMO or HpmixArray===============================*/
/* Adopted from */
/* Karine PIOT -- SEPT 2003 */
/* Christelle Hennequet-Antier -- March 2005 */
/* Dem... |
7f67d6e6b426cbb7650a4d916cd2efe7b409c27619ca654e1f17452d733cdb6a | SAS | 88,842 | 2,190 | %macro Lattice_gbed_over_bed_track(
/*This macro can draw mixed data for CNV and scatter plots in the upper tracks and gene tracks at the bottom!
All functionalities of this macro have been incoorperated into the macro Lattice_gscatter_over_bed_track,
and please use the latter accordingly.
Note: when makedotheatma... |
ae7b5736c7cb8d6ed95c22429d57e8bc6c3c94539888021519a0212763b60480 | SAS | 100,873 | 2,420 | %macro Lattice_gscatter_over_bed_track(
/*
Note: when makedotheatmap=1, in default, the scatterplot will use lattice_subgrp_var to color dots
across different scatter groups; User can supply an independent variable represented by the macro variable
color_resp_var to color scatter plot dots but different scattergro... |
bf96758f72078a7c85e5537a53d9c6d0870efac0ba75f669d8d8ad315c146200 | SAS | 128,954 | 5,354 | *Paper link;
*https://watermark.silverchair.com/jrsssb_61_2_381.pdf?token=AQECAHi208BE49Ooan9kkhW_Ercy7Dm3ZL_9Cf3qfKAc485ysgAAA14wggNaBgkqhkiG9w0BBwagggNLMIIDRwIBADCCA0AGCSqGSIb3DQEHATAeBglghkgBZQMEAS4wEQQMkAebIOeSQqavUZk6AgEQgIIDEamwDFPGXs4FTB6VRA8tlXej8y6AOAXPBkY39KNliOI6OGXw6SD9Pq1qq-8fCkEeWaaX_Ob89kY_GpfkjYP_DHrj3... |
d64ed3c8d3f6a8da6f9c45a5ae4f82818319899790501821df88079a146e5721 | SAS | 200,000 | 5,145 | /*************************************************************************************************
** **
** **
** TITLE: Diagnostic Test Accuracy Meta-analysis - Bivariate and HSROC models **
** **
** **
... |
8f1d2e1330eb732a69a17fec6e596a904d80a9157a905b484521798e75aa069e | SPSS | 192 | 7 | * File: /scripts/analysis/repeated_measures_anova.sps.
GLM RMS_pre RMS_post BY Group
/WSFACTOR=Time 2 Polynomial
/METHOD=SSTYPE(3)
/CRITERIA=ALPHA(.05)
/WSDESIGN=Time
/DESIGN=Group.
|
02208b72478d7c78de6d7e1daf7c83b3e55f17611983e4802440a98378114132 | Scala | 758 | 23 | import sc.fiji.snt.io.{MouseLightLoader, MouseLightQuerier}
import sc.fiji.snt.annotation.AllenUtils
import scala.collection.JavaConversions._
/**
* Streamlined version of Download_ML_Data_(Demo_I).groovy written in Scala. Have
* a look at the original Download_ML_Data_(Demo_I).groovy script for details.
* TF 20200... |
7211b718d5f60410d3588b9255f65427f605fd95414a87a5d9dfc0374382852d | Shell | 6 | 1 | # TODO |
cc0d36abe743cad9996b4a10e4f2add5692305e4cfd31f6dc5090b18320ccd87 | Shell | 14 | 1 | bedpostx .
|
ca4342458bcafc3b2a8d10f1a591a1885eb0ba1e64ee9ee7d44ba91ed849e123 | Shell | 24 | 1 | make clean && make html
|
1b263b8908f42b4e675b286e0d836f136b1f9142e41ca7f80a699699f3608082 | Shell | 25 | 3 | sh mlp_parallelize.sh
|
c803bcdfb714233a2f4499ede0b1d01c63b4946b2b6abff11851943ee503059c | Shell | 25 | 1 | python docs/build_acks.py |
52d8a847131518f689b08e66a0dd73da1ebe21e2a56a3de86108a55b35023c45 | Shell | 27 | 2 | #!/bin/bash
snakemake "$@"
|
d1e86d9dc1befc85a19e1917cb962189f55e2523258e9c1fbbfbed1107b41608 | Shell | 29 | 7 | #$ -cwd
#$ -V
{exec_job}
|
b143d0f4b3ea1b989649dfece18b0dbf9ba9a4f1318cb82005e2950f8fb27ebe | Shell | 35 | 1 | fslmerge -t merged4d.nii.gz *.nii*
|
e6f9e03db58e95aef2598ed92945d8d6cf31d9daaafac875d8fbe0ed6062fd81 | Shell | 37 | 2 | nrnivmodl ./mechanisms
./run.py "$@"
|
22c182850e8f402c4ea76d0dc2d54afe516ae16042e5a7c110f871358d99e3fb | Shell | 41 | 4 | #!/bin/bash
rm timesteps-*
rm aps/*.txt
|
d60b865d4dc9237c7876530c79b70e002f78399209580314c290e6e05c948029 | Shell | 41 | 2 | python setup.py sdist
twine upload dist/* |
9106a323fcc86e67c908319407346650487459f4f3f2dab9b527a5e77320a715 | Shell | 43 | 4 | #!/bin/bash
rm timesteps.txt
rm aps/*.txt
|
29ff7e719cdcd0b70c7fd41bf31df90d2bd54eff96db3354bfd54a909b93a9d1 | Shell | 44 | 1 | COMPILE_STATIC_LIB "yxml" "yxml.c" "yxml.h"
|
cfc2afe276f7816ecdf181089f2b119ff866778b2f0f07644bef61e55f5fd1ae | Shell | 45 | 4 | sh mf_parallelize.sh
sh mlp_parallelize.sh
|
59dbdd235ad6cebe9435531f42265703311b708f769247708fb1640856837fc4 | Shell | 46 | 2 | nrnivmodl ./mechanisms
./run_RmpRiTau.py "$@"
|
6c22341fb604dde09c0932ad23afeb712852cf01ecc48f5fc110a97163b929d3 | Shell | 46 | 1 | bet data.nii.gz dataB.nii.gz -F -g 0 -n -m
|
b1036c0c0cd6173688e7be123a6d393d037c7f72a4a95fda6a3ab8b8fd15d731 | Shell | 46 | 3 | eddy_correct dataB.nii dataBC.nii.gz 0
|
abc52c4feae0572ec53cabf64554cb1134652e2043bec19cb653e5956ab932b6 | Shell | 50 | 2 | echo MAKE $1
VERBOSE=1 make -j $1 && make install
|
fe9c6003b4c0ce536ddbb3ee341b78e33f7bf3f9edebc36fcee6292fcacbcafa | Shell | 52 | 1 | fslascii2img data 100 100 100 1 1 1 1 2 tempimg.nii
|
6404b3d16047e45afb4b3046ad81f6f35b835ad807b71751482d65456af1daa6 | Shell | 56 | 1 | systemctl isolate multi-user # Stop the window manager.
|
e534784a3129435320580f219dece9658d2e3d2bc966eed29f98f51124ae98d4 | Shell | 56 | 3 | python2 scenario1.py
rm cmumosi -r
python3 scenario1.py
|
fc9cd0bf66b5a4e36c50f32b80254ddff9f428afcf3cd3fcc6a3966b602cd3d5 | Shell | 56 | 1 | docker build -t cluster_haptic_texture_database:latest . |
15c8b956562c0796d0a9187bfc22d6cd908a13bca52b2e66f08680053971e3c0 | Shell | 57 | 3 | #!/bin/bash
cd /ISAT_with_segment_anything
python main.py |
1942164bbd8241353f452ae3b34308f65dbe055496b6825b039ebba199bfb698 | Shell | 58 | 2 | #!/bin/sh
python Py_calc_NIP_3D.py s1*.txt s2*.txt &> NIP
|
4c43c27f03b42f16fc070e9a294695bb3483a46a8b4436751313de16b22cc75f | Shell | 58 | 4 | #!/bin/bash
export CUDA_VISIBLE_DEVICES=1
python train.py |
5f3620521d96418de7cb713cc6807bbb1170e2d49eac268ae2330d95f525d631 | Shell | 58 | 4 | #!/bin/bash
export CUDA_VISIBLE_DEVICES=1
python infer.py |
3cac42641b0fcb854a1cd9ec241d6b92eb17bbf41b67afd71db4e66093f9f8d3 | Shell | 60 | 2 | python src/build_sav.py \
-d data/mutant_example/no_exp
|
86087c71ba5bbb870f7cb1ea9c9949280fc6abd05634277a2cec367a237a4322 | Shell | 60 | 3 | export CUDA_DEVICE_ORDER=PCI_BUS_ID
sh seal_parallelize.sh
|
0f0b157ac52501b8861738d400792ff70c251f8677bb3eacee4e375c447b562a | Shell | 65 | 4 | #!/bin/sh
source ./bin/activate
./bin/conda-unpack
./bin/macular
|
5d0f888af41b1a9340c5e306ec036a2e30d6975affc27a0cdff6d65c4d245fb8 | Shell | 66 | 2 | dtifit -k dataBC.nii.gz -o dataBCF -m dataB_mask -r bvec -b bval
|
cebd683fc043aaf2ea1f53c1850e34713024104a8fe04ce3f4a2f865fe336fb2 | Shell | 70 | 2 | sudo apt-get update
sudo apt-get install libcriterion-dev libgdbm-dev
|
ef728327372aa37225486fa1cdd9eeeac802bf1cf553d02b6d4ca139574f5a7c | Shell | 70 | 1 | docker buildx build --platform linux/amd64 -t fcollman/skelkeys:$1 .
|
fa2656cc7f623ee43468ef8eeb7cdb01051e3b53555e336b7bd80e5c11eb3c9a | Shell | 70 | 2 | #!/usr/bin/env bash
ctest -N -R simtest | grep "Test #" | cut -d: -f3
|
9c1edb491c379a7fa98f462a05fe3a2159bebf538a378a9e2f7a077ab7cf02ff | Shell | 72 | 4 | for f in *.xvg; do
out=${f/.xvg/.txt}
tail -n +13 $f > $out
done
|
a32f5a95de5ae870a939d1b0c8424ec714b00d906d4ce9a8cf8b71c8be738354 | Shell | 73 | 3 | module purge
module load Python/3.9.6-GCCcore-11.2.0
~/.local/bin/nrniv |
127386df53cc78b84376e2350b20be22a30faab27910c78d94eb37ce0067b56c | Shell | 74 | 4 | for f in */*.xvg; do
out=${f/.xvg/.txt}
tail -n +18 $f > $out
done
|
341dfd92876f1f950e7a958f85fed8f9c14068696fb68c05fea147733354d46e | Shell | 76 | 2 | python3 make_master_file.py
cp master.csv ../../ogb/nodeproppred/master.csv
|
78f84781a67ab6949bc89f0895f899090aac73f50ed0ec3ed3f9f587a9d4f255 | Shell | 76 | 2 | python3 make_master_file.py
cp master.csv ../../ogb/linkproppred/master.csv
|
5db33dfe01c1fff7b822a768b6bac67ea0cc0f77fc66a09c600dfdfd8ba3e148 | Shell | 77 | 5 | #!/bin/bash -e
source config.sh
docker build -t ${image_name}:${version} .
|
55fb2563c2ae383b728596b1e3b041df54afe4797952f9e6485f89e5ec8a461f | Shell | 78 | 4 | #!/usr/bin/env bash
set -euo pipefail # Will fail on error
echo "Not ready!" |
9e3a9e5f34a86c15fe093d4cc93a56ecd0b1b642483b0f85978a20c96adc262d | Shell | 80 | 3 | python bash_script_generation.py
cd ..
sh hyper_param_tuning/parallelize_gnn.sh
|
eaf85b11f6914e8429daa6c78922664a50f87d5e97b57116e139e97d1dd92906 | Shell | 80 | 3 | python bash_script_generation.py
cd ..
sh hyper_param_tuning/parallelize_mlp.sh
|
7e42f882c88d7a4349a346d143769a845e18bb9024bffc80c899164b2d1e3392 | Shell | 81 | 3 | find . -name "*.pyc" -type f -delete
find . -name "__pycache__" -type d -delete
|
f47ebc8d450dd8ab577ec4e4e7a5fa0047f61306f73cef351588b4eaf9fb1d4b | Shell | 81 | 3 | python bash_script_generation.py
cd ..
sh hyper_param_tuning/parallelize_sign.sh
|
44aa4cbfad35e66cb1587c45c6b11f0be8b477bf4558b8a1f6bc2e9223972e0d | Shell | 82 | 5 | version="0.16.1"
# docker related
registry="quay.io/hisplan"
image_name="seqkit"
|
5cad85440a7bc7be281b75747464b6d6ad6d464a12f9df2347d5baf701f9cbd9 | Shell | 83 | 2 | modprobe nvidia NVreg_RestrictProfilingToAdminUsers=0
#systemctl isolate graphical
|
d78d0e1de228362fe5f4d39a2618e0c23bf192486a1bf61eb2698d4650a226d4 | Shell | 83 | 1 | modprobe -r nvidia_uvm nvidia_drm nvidia_modeset nvidia # Unload dependent modules
|
ad0c548bfb83e0d5c21431caa845885746f6a239927a593516be9477ce85593d | Shell | 84 | 3 | python bash_script_generation.py
cd ..
sh hyper_param_tuning/parallelize_node2vec.sh |
de21443637f31ed7a92279fee1c17c2ae5cc043ebadc463a92bf6cf907550b61 | Shell | 84 | 3 | python bash_script_generation.py
cd ..
sh hyper_param_tunning/parallelize_mlp_cs.sh
|
7887a6522c2ba0aaecfe6c51d3b0009d8cf7a7e5c1a1547ebeb669c42c4f29dc | Shell | 85 | 3 | pyuic5 ara_explorer.ui > ara_explorer_UI.py
pyuic5 area_namer.ui > area_namer_UI.py
|
9647c9d03594099c5574b573f1d09353803580b1c90a8b0bcb7e816323140ea1 | Shell | 88 | 4 | #!/usr/bin/env bash
echo "Rebind development Scilpy to Python"
pip install --user -e .
|
b7fdb040cf3dc3e54f28aa279235871df9953cc690f31e290e35d349aa83ace0 | Shell | 88 | 3 | python bash_script_generation.py
cd ..
sh hyper_param_tuning/parallelize_cluster_gcn.sh
|
cf1e28bcdd093112459084e31b53759a8cb5f24789f5b3a60c96c7b09e5d1954 | Shell | 88 | 3 | python bash_script_generation.py
cd ..
sh hyper_param_tuning/parallelize_graph_saint.sh
|
687215e418eda01501e04e2a48e88e046f9439cf33880b953c54b9b539b269b7 | Shell | 89 | 5 | version="0.2.1"
# docker related
registry="quay.io/hisplan"
image_name="sharp-basic-qc"
|
b237cf1f0a7cd5f245f0128ca7f1760d0aef40b07d8d6db5e2f9ccd47edc4780 | Shell | 89 | 3 | export CUDA_DEVICE_ORDER=PCI_BUS_ID
sh gnn_gcn_parallelize.sh
sh gnn_sage_parallelize.sh
|
543b6e8b3fa546e63ad07c7b6608e584891561a431fa0be2e162beb0c0dfa0f6 | Shell | 90 | 2 | pyuic5 infoBox.ui > infoBox_UI.py
pyuic5 cross_section_plot.ui > cross_section_plot_UI.py
|
c20c68247dcb324c14b6138c75109b32c4c6bef1eff001e39873638b96bd55a5 | Shell | 91 | 5 | version="0.5.0"
# docker related
registry="quay.io/hisplan"
image_name="hto-demux-kmeans"
|
dbde66a476b6f2ca885412ff88de341b9819d7705e150a84098fbcbd845777c1 | Shell | 91 | 5 | version="0.6.0"
# docker related
registry="quay.io/hisplan"
image_name="hto-demux-seurat"
|
b0ebd059ed254eaf5c8fdcfa4ceb344fc93b950c01eb3de3805c7299ce5f7c12 | Shell | 92 | 5 | version="0.2.0"
# docker related
registry="quay.io/hisplan"
image_name="cut-indrop-spacer"
|
4e687a05cfbd68895d1ec45acc32267d7f03f12635547f88ccebeaeeea3080e2 | Shell | 94 | 5 | version="0.3.4"
# docker related
registry="quay.io/hisplan"
image_name="hto-adt-postprocess"
|
a3c73e9bc89e3ac304224e81045dd9a4a5764addf461a7006206d786a83df347 | Shell | 94 | 3 | python bash_script_generation.py
cd ..
sh hyper_param_tuning-use_sage/parallelize_gnn_sage.sh
|
a1d03d85a7d10edbbf26f48d281be449efe0aea4c099265e7124b3c7243fa98e | Shell | 100 | 2 | flirt -in FA -ref dataB -out FAinT1 -omat FA2T1.mat
convert_xfm -omat T12FA.mat -inverse FA2T1.mat
|
460d7cf74b0df104c86b3a1fa5ccfd9e969c6b7f3e7ac1b866176935793440b8 | Shell | 101 | 1 | tabix -h ALL.2of4intersection.20100804.genotypes.vcf.gz 2:240737000-240821036 > KIF1A_region.1kg.vcf
|
4d61dfab3a2f957d7f39e44b7113f677aa556d1fa952de0eea72e31228d762d7 | Shell | 101 | 2 | #!/bin/bash
find src/ \( -name "*.h" -o -name "*.cpp" -o -name "*.cu" \) -exec clang-format -i {} +
|
9445b947a8e1bdb6abec423b2a3c66ea3a01ad21fecb408b59b8eceb4da6e702 | Shell | 102 | 10 | ## build htslib
cd htslib
make clean
cd ..
## build qgenlib
cd qgenlib
cd build
make clean
cd ../../
|
73c91e747fe349c75dc28d5b64a23b001577283f2b617374ac44e0e20ee9a0db | Shell | 105 | 4 | #!/bin/bash
../TaskfMRIAnalysisBatch.sh --StudyFolder=${HOME}/data/3T_Size_Checking --Subjlist=100307
|
9c4e1b108cc92c3271c37d7d616ac94f302723ffc6fbbd8d105c3acbdf95bfe2 | Shell | 105 | 4 | #!/bin/bash
../IcaFixProcessingBatch.sh --StudyFolder=${HOME}/data/3T_Size_Checking --Subjlist=100307
|
1cbe8a3be6b6fda7fd5bf95265b0e06ddd9ca3a150d7a42b50d4b9e2afec7bf2 | Shell | 106 | 4 | SOURCE_FILES="miniz.c"
HEADER_FILES="miniz.h"
COMPILE_STATIC_LIB "miniz" "$SOURCE_FILES" "$HEADER_FILES"
|
c7864dbb62113027af603f523b33ec6cdc1e656017fd0936f137dff5d800a90c | Shell | 106 | 3 | #!/bin/bash
../FreeSurferPipelineBatch.sh --StudyFolder=${HOME}/data/3T_Size_Checking --Subjlist=100307
|
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