repo_name stringlengths 7 90 | path stringlengths 5 191 | copies stringlengths 1 3 | size stringlengths 4 6 | content stringlengths 976 581k | license stringclasses 15
values |
|---|---|---|---|---|---|
dancastellani/urbanutils | urban_utils/pandas_utils.py | 1 | 1525 | import pandas
def merge_series_summing_values(series_a, series_b):
'''This method merges two series summing columns.'''
if series_a is None or series_b is None:
if series_a is not None: # only b is None
return series_a.copy()
elif series_b is not None: # only a is None
... | mit |
amueller/advanced_training | plots/plot_linear_svc_regularization.py | 15 | 1065 | import matplotlib.pyplot as plt
import numpy as np
from sklearn.svm import SVC
from sklearn.datasets import make_blobs
def plot_linear_svc_regularization():
X, y = make_blobs(centers=2, random_state=4, n_samples=30)
fig, axes = plt.subplots(1, 3, figsize=(12, 4))
# a carefully hand-designed dataset lol
... | bsd-2-clause |
googledatalab/pydatalab | google/datalab/utils/commands/_utils.py | 2 | 27199 | # Copyright 2015 Google Inc. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except
# in compliance with the License. You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed ... | apache-2.0 |
hamogu/marxs | marxs/design/tolerancing.py | 1 | 26010 | # Licensed under GPL version 3 - see LICENSE.rst
import inspect
from functools import wraps
import collections
from copy import copy
import warnings
import numpy as np
from transforms3d import affines, euler
from astropy.table import Table
from astropy import table
import astropy.units as u
from ..simulator import Par... | gpl-3.0 |
pjryan126/solid-start-careers | store/api/zillow/venv/lib/python2.7/site-packages/pandas/sparse/tests/test_sparse.py | 1 | 71073 | # pylint: disable-msg=E1101,W0612
import operator
import nose # noqa
from numpy import nan
import numpy as np
import pandas as pd
from pandas.util.testing import (assert_almost_equal, assert_series_equal,
assert_index_equal, assert_frame_equal,
asser... | gpl-2.0 |
NicWayand/xray | doc/conf.py | 2 | 13630 | # -*- coding: utf-8 -*-
#
# xarray documentation build configuration file, created by
# sphinx-quickstart on Thu Feb 6 18:57:54 2014.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
# autogenerated file.
#
# Al... | apache-2.0 |
pandeylab/pyquant | setup.py | 1 | 1517 | from __future__ import print_function
import os
from distutils.core import setup
from distutils.extension import Extension
from setuptools import find_packages
try:
from Cython.Build import cythonize
import Cython.Distutils
CYTHON=True
except ImportError:
CYTHON=False
print('CYTHON UNAVAILABLE')
tr... | mit |
PatrickChrist/scikit-learn | examples/manifold/plot_swissroll.py | 330 | 1446 | """
===================================
Swiss Roll reduction with LLE
===================================
An illustration of Swiss Roll reduction
with locally linear embedding
"""
# Author: Fabian Pedregosa -- <fabian.pedregosa@inria.fr>
# License: BSD 3 clause (C) INRIA 2011
print(__doc__)
import matplotlib.pyplot... | bsd-3-clause |
djtotten/workbench | setup.py | 1 | 1964 | #!/usr/bin/env python
# -*- coding: utf-8 -*-
import os, sys
from setuptools import setup
readme = open('README.rst').read()
long_description = readme
doclink = '''
Documentation
-------------
The full documentation is at http://workbench.rtfd.org. '''
history = open('HISTORY.rst').read().replace('.. :changelog:', ... | mit |
466152112/scikit-learn | sklearn/cluster/__init__.py | 364 | 1228 | """
The :mod:`sklearn.cluster` module gathers popular unsupervised clustering
algorithms.
"""
from .spectral import spectral_clustering, SpectralClustering
from .mean_shift_ import (mean_shift, MeanShift,
estimate_bandwidth, get_bin_seeds)
from .affinity_propagation_ import affinity_propagati... | bsd-3-clause |
hammerlab/gtfparse | gtfparse/read_gtf.py | 1 | 8633 | # Copyright (c) 2015-2018. Mount Sinai School of Medicine
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable ... | apache-2.0 |
procoder317/scikit-learn | sklearn/neighbors/tests/test_kd_tree.py | 159 | 7852 | import numpy as np
from numpy.testing import assert_array_almost_equal
from sklearn.neighbors.kd_tree import (KDTree, NeighborsHeap,
simultaneous_sort, kernel_norm,
nodeheap_sort, DTYPE, ITYPE)
from sklearn.neighbors.dist_metrics import Dista... | bsd-3-clause |
crichardson17/starburst_atlas | Metallicity_Comparison_hires/Metallicity_comparison_plotter1.py | 1 | 23288 | ############################################################
####### Plotting File for Metallicity Contour Plots ########
################## Data read from Cloudy ###################
################ Helen Meskhidze, Fall 2015 ################
#################### Elon University #######################
#--------------... | gpl-2.0 |
maxalbert/bokeh | bokeh/compat/bokeh_exporter.py | 38 | 1508 | #-----------------------------------------------------------------------------
# Copyright (c) 2012 - 2014, Continuum Analytics, Inc. All rights reserved.
#
# Powered by the Bokeh Development Team.
#
# The full license is in the file LICENSE.txt, distributed with this software.
#----------------------------------------... | bsd-3-clause |
freedomofpress/FingerprintSecureDrop | fpsd/tests/test_features.py | 2 | 13743 | #!/usr/bin/env python3.5
from collections import OrderedDict
from decimal import Decimal
import os
import pandas as pd
import sqlalchemy
import unittest
from features import compute_bursts, FeatureStorage
from . import common
def db_helper(db, table_name, feature_names):
"""Helper function for testing a table in... | agpl-3.0 |
466152112/scikit-learn | sklearn/covariance/__init__.py | 389 | 1157 | """
The :mod:`sklearn.covariance` module includes methods and algorithms to
robustly estimate the covariance of features given a set of points. The
precision matrix defined as the inverse of the covariance is also estimated.
Covariance estimation is closely related to the theory of Gaussian Graphical
Models.
"""
from ... | bsd-3-clause |
scivision/mifi_rssi | mifirssi/__init__.py | 2 | 1248 | #!/usr/bin/env python
from pathlib import Path
from dateutil.parser import parse
from datetime import timedelta
from pandas import read_csv,DataFrame
from numpy import nan,diff,nonzero
from matplotlib.pyplot import show,subplots
import seaborn as sns
sns.set_context('talk')
def readrssi(fn,interval):
fn = Path(fn)... | gpl-3.0 |
guillermo-carrasco/bcbio-nextgen-vm | bcbiovm/graph/graph.py | 3 | 1438 | from __future__ import print_function
import matplotlib
matplotlib.use('Agg')
import os
import pylab
pylab.rcParams['figure.figsize'] = (35.0, 12.0)
from bcbio import utils
from bcbio.graph import graph as bcbio_graph
from bcbiovm.graph.elasticluster import fetch_collectl
def bootstrap(args):
if args.cluster a... | mit |
xavierwu/scikit-learn | sklearn/svm/tests/test_svm.py | 70 | 31674 | """
Testing for Support Vector Machine module (sklearn.svm)
TODO: remove hard coded numerical results when possible
"""
import numpy as np
import itertools
from numpy.testing import assert_array_equal, assert_array_almost_equal
from numpy.testing import assert_almost_equal
from scipy import sparse
from nose.tools im... | bsd-3-clause |
socrata/arcs | arcs/logparser.py | 1 | 5652 | import re
import urllib
import pandas as pd
from frozendict import frozendict
from functools import partial
from dateutil.parser import parse
from gzip import GzipFile
# components of an Apache logfile line
_LOG_PARTS = [
r'(?P<host>\S+)', # host %h
r'\S+', # inden... | mit |
BigTone2009/sms-tools | lectures/05-Sinusoidal-model/plots-code/sineModelAnal-bendir-phase.py | 24 | 1267 | import numpy as np
import matplotlib.pyplot as plt
import sys, os, time
sys.path.append(os.path.join(os.path.dirname(os.path.realpath(__file__)), '../../../software/models/'))
import stft as STFT
import sineModel as SM
import utilFunctions as UF
(fs, x) = UF.wavread(os.path.join(os.path.dirname(os.path.realpath(__fi... | agpl-3.0 |
webmasterraj/FogOrNot | flask/lib/python2.7/site-packages/pandas/io/tests/test_pytables.py | 2 | 175872 | import nose
import sys
import os
import warnings
import tempfile
from contextlib import contextmanager
import datetime
import numpy as np
import pandas
import pandas as pd
from pandas import (Series, DataFrame, Panel, MultiIndex, Categorical, bdate_range,
date_range, Index, DatetimeIndex, isnull)
... | gpl-2.0 |
tomaslaz/KLMC_Analysis | DM_Comparison.py | 2 | 15427 | #!/usr/bin/env python
"""
A script to compare unique structures in terms of their energy ranking between different levels of theory (IPs (GULP) and DFT (FHIaims))
@author Tomas Lazauskas, 2016
@web www.lazauskas.net
@email tomas.lazauskas[a]gmail.com
"""
import os
import sys
import numpy as np
import matplotlib.py... | gpl-3.0 |
henchc/CLFL_2016 | CLFL_Brill.py | 1 | 7553 | # -*- coding: utf-8 -*-
from __future__ import unicode_literals
from __future__ import division
from __future__ import absolute_import
# Created at UC Berkeley 2015
# Authors: Christopher Hench
# ==============================================================================
'''This code trains and evaluates a Brill ta... | mit |
automl/paramsklearn | tests/components/feature_preprocessing/test_extra_trees.py | 1 | 1894 | import unittest
from sklearn.linear_model import RidgeClassifier
from ParamSklearn.components.feature_preprocessing.extra_trees_preproc_for_classification import \
ExtraTreesPreprocessor
from ParamSklearn.util import _test_preprocessing, PreprocessingTestCase, \
get_dataset
import sklearn.metrics
class Extre... | bsd-3-clause |
aricooperman/Jzipline | zipline/pipeline/factors/technical.py | 2 | 23771 | """
Technical Analysis Factors
--------------------------
"""
from numbers import Number
from numpy import (
abs,
arange,
average,
clip,
diff,
exp,
fmax,
full,
inf,
isnan,
log,
NINF,
searchsorted,
sqrt,
sum as np_sum,
)
from numexpr import evaluate
from scipy.... | apache-2.0 |
acorbe/acorbe_openptv_post_processing | python_scripts/traj_correlation.py | 1 | 31591 | import pandas as pd
import numpy as np
from itertools import combinations
import traj_processing as tp
from scipy.ndimage.measurements import label
import scipy.ndimage.filters as filters
from itertools import groupby
import collections
import Data_classes as dtCl
import signal_processing as sp
import json
import m... | gpl-2.0 |
smartscheduling/scikit-learn-categorical-tree | examples/text/mlcomp_sparse_document_classification.py | 292 | 4498 | """
========================================================
Classification of text documents: using a MLComp dataset
========================================================
This is an example showing how the scikit-learn can be used to classify
documents by topics using a bag-of-words approach. This example uses
a s... | bsd-3-clause |
akionakamura/scikit-learn | examples/applications/plot_tomography_l1_reconstruction.py | 204 | 5442 | """
======================================================================
Compressive sensing: tomography reconstruction with L1 prior (Lasso)
======================================================================
This example shows the reconstruction of an image from a set of parallel
projections, acquired along dif... | bsd-3-clause |
cpcloud/arrow | python/pyarrow/feather.py | 1 | 6981 | # Licensed to the Apache Software Foundation (ASF) under one
# or more contributor license agreements. See the NOTICE file
# distributed with this work for additional information
# regarding copyright ownership. The ASF licenses this file
# to you under the Apache License, Version 2.0 (the
# "License"); you may not u... | apache-2.0 |
cbmoore/statsmodels | examples/python/regression_diagnostics.py | 28 | 2876 |
## Regression diagnostics
# This example file shows how to use a few of the ``statsmodels`` regression diagnostic tests in a real-life context. You can learn about more tests and find out more information abou the tests here on the [Regression Diagnostics page.](http://statsmodels.sourceforge.net/stable/diagnostic.ht... | bsd-3-clause |
aflaxman/scikit-learn | examples/cluster/plot_birch_vs_minibatchkmeans.py | 36 | 3689 | """
=================================
Compare BIRCH and MiniBatchKMeans
=================================
This example compares the timing of Birch (with and without the global
clustering step) and MiniBatchKMeans on a synthetic dataset having
100,000 samples and 2 features generated using make_blobs.
If ``n_clusters... | bsd-3-clause |
mannion9/Intro-to-Python | Simulations/Numerical Solver of Schrodenger Equation.py | 1 | 7000 | import math as m
import matplotlib.pyplot as plt
import matplotlib.animation as animation
import cmath
pi=m.pi
#
# Numerical integration of Schrodenger Equation using the leap from method.
#
# In this program you can simulate three different situations with a free particle
# wave packet. 1) No potential 2) SHO Potenti... | mit |
florian-f/sklearn | sklearn/manifold/isomap.py | 6 | 7139 | """Isomap for manifold learning"""
# Author: Jake Vanderplas -- <vanderplas@astro.washington.edu>
# License: BSD, (C) 2011
import numpy as np
from ..base import BaseEstimator, TransformerMixin
from ..neighbors import NearestNeighbors, kneighbors_graph
from ..utils import check_arrays
from ..utils.graph import graph_... | bsd-3-clause |
lekshmideepu/nest-simulator | pynest/examples/brette_gerstner_fig_2c.py | 8 | 3104 | # -*- coding: utf-8 -*-
#
# brette_gerstner_fig_2c.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the ... | gpl-2.0 |
QUANTAXIS/QUANTAXIS | QUANTAXIS/QASU/save_binance.py | 2 | 22768 | # coding: utf-8
# Author: Will
# Contributor: 阿财（Rgveda@github）（11652964@qq.com）
# Created date: 2018-06-08
#
# The MIT License (MIT)
#
# Copyright (c) 2016-2018 yutiansut/QUANTAXIS
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (th... | mit |
emeb/iceRadio | FPGA/rxadc_2/python/tst_ddc.py | 1 | 1392 | #!/usr/bin/python3
#
# Digital DownConverter testbench
#
# 07-23-2015 E. Brombaugh
# Test out the DDC
import numpy as np
import matplotlib as mpl
import matplotlib.pyplot as plt
import scipy.signal as signal
from scipy.fftpack import fft, ifft, fftfreq, fftshift
from ddc import ddc
# generate a signal
data_len... | mit |
imk1/IMKTFBindingCode | runKMerExtraTreesClassificationNoPairsFeatureListDownweight.py | 1 | 9419 | def makeStringList(stringListFileName):
# Make a list of strings from a file
stringListFile = open(stringListFileName)
stringList = []
for line in stringListFile:
# Iterate through the strings and add each to stringList
stringList.append(line.strip())
stringListFile.close()
print len(stringList)
ret... | mit |
gph82/mdtraj | mdtraj/formats/pdb/pdbfile.py | 2 | 29914 | ##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2013 Stanford University and the Authors
#
# Authors: Peter Eastman, Robert McGibbon
# Contributors: Carlos Hernande... | lgpl-2.1 |
soulmachine/scikit-learn | examples/applications/plot_model_complexity_influence.py | 25 | 6378 | """
==========================
Model Complexity Influence
==========================
Demonstrate how model complexity influences both prediction accuracy and
computational performance.
The dataset is the Boston Housing dataset (resp. 20 Newsgroups) for
regression (resp. classification).
For each class of models we m... | bsd-3-clause |
who-emro/meerkat_api | docs/source/conf.py | 2 | 5855 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# Meerkat API documentation build configuration file, created by
# sphinx-quickstart on Mon Feb 19 16:21:35 2018.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
... | mit |
krikru/tensorflow-opencl | tensorflow/contrib/learn/python/learn/estimators/kmeans.py | 12 | 8778 | # Copyright 2016 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | apache-2.0 |
YuwenXiong/py-R-FCN | lib/fast_rcnn/test.py | 3 | 11224 | # --------------------------------------------------------
# Fast R-CNN
# Copyright (c) 2015 Microsoft
# Licensed under The MIT License [see LICENSE for details]
# Written by Ross Girshick
# --------------------------------------------------------
"""Test a Fast R-CNN network on an imdb (image database)."""
from fast... | mit |
magnastrazh/NEUCOGAR | nest/serotonin/research/C/nest-2.10.0/pynest/examples/intrinsic_currents_subthreshold.py | 9 | 7172 | # -*- coding: utf-8 -*-
#
# intrinsic_currents_subthreshold.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version ... | gpl-2.0 |
kristianfoerster/melodist | setup.py | 1 | 1880 | # -*- coding: utf-8 -*-
from setuptools import setup, find_packages
long_description = """MELODIST is an open-source toolbox written in Python for
disaggregating daily meteorological time series to hourly time steps. The
software framework consists of disaggregation functions for each variable
including temperature, h... | gpl-3.0 |
draperjames/bokeh | bokeh/charts/tests/test_builder.py | 3 | 4214 | """This is the Bokeh charts testing interface.
"""
#-----------------------------------------------------------------------------
# Copyright (c) 2012 - 2014, Continuum Analytics, Inc. All rights reserved.
#
# Powered by the Bokeh Development Team.
#
# The full license is in the file LICENSE.txt, distributed with this... | bsd-3-clause |
Myasuka/scikit-learn | sklearn/covariance/tests/test_robust_covariance.py | 213 | 3359 | # Author: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Gael Varoquaux <gael.varoquaux@normalesup.org>
# Virgile Fritsch <virgile.fritsch@inria.fr>
#
# License: BSD 3 clause
import numpy as np
from sklearn.utils.testing import assert_almost_equal
from sklearn.utils.testing import assert_array_alm... | bsd-3-clause |
RPGOne/Skynet | scikit-learn-0.18.1/sklearn/feature_extraction/hashing.py | 74 | 6153 | # Author: Lars Buitinck
# License: BSD 3 clause
import numbers
import numpy as np
import scipy.sparse as sp
from . import _hashing
from ..base import BaseEstimator, TransformerMixin
def _iteritems(d):
"""Like d.iteritems, but accepts any collections.Mapping."""
return d.iteritems() if hasattr(d, "iteritems... | bsd-3-clause |
vermouthmjl/scikit-learn | examples/linear_model/lasso_dense_vs_sparse_data.py | 348 | 1862 | """
==============================
Lasso on dense and sparse data
==============================
We show that linear_model.Lasso provides the same results for dense and sparse
data and that in the case of sparse data the speed is improved.
"""
print(__doc__)
from time import time
from scipy import sparse
from scipy ... | bsd-3-clause |
godrayz/trading-with-python | lib/interactiveBrokers/histData.py | 76 | 6472 | '''
Created on May 8, 2013
Copyright: Jev Kuznetsov
License: BSD
Module for downloading historic data from IB
'''
import ib
import pandas as pd
from ib.ext.Contract import Contract
from ib.opt import ibConnection, message
import logger as logger
from pandas import DataFrame, Index
import os
imp... | bsd-3-clause |
xuleiboy1234/autoTitle | tensorflow/tensorflow/examples/learn/iris_custom_decay_dnn.py | 37 | 3774 | # Copyright 2016 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by appl... | mit |
fornaxco/Mars-Express-Challenge | preprocessing/prepare_ftl.py | 1 | 1200 | # coding: utf-8
"""
@author: fornax
"""
from __future__ import print_function, division
import os
import numpy as np
import pandas as pd
os.chdir(os.path.dirname(os.path.abspath(__file__)))
os.sys.path.append(os.path.dirname(os.getcwd()))
import prepare_data1 as prep
DATA_PATH = os.path.join('..', prep.DATA_PATH)
# ... | bsd-3-clause |
lodemo/CATANA | src/face_recognition/facenet/tmp/random_test.py | 3 | 3742 | import tensorflow as tf
import numpy as np
with tf.Graph().as_default():
tf.set_random_seed(666)
# Placeholder for input images
input_placeholder = tf.placeholder(tf.float32, shape=(9, 7), name='input')
# Split example embeddings into anchor, positive and negative
#anchor, positive, negative = tf.spli... | mit |
mirestrepo/voxels-at-lems | harris_experiments/plot_C_histogram.py | 1 | 1035 | # -*- coding: utf-8 -*-
"""
Created on Mon Mar 7 14:38:46 2011
Plot pca test error vs train error
@author: Isabel Restrepo
"""
import os;
import optparse;
import time;
import sys;
import numpy as np
import matplotlib.pyplot as plt
import glob
if __name__=="__main__":
full_path_file= '/Users/isa/Experiments/BO... | bsd-2-clause |
WMD-group/effectivemasstheory | examples/cspbcl3.py | 2 | 6667 | #! /usr/bin/env python
"""Calculate simple semiconductor properties from effective mass theory"""
################################################################################
# Aron Walsh 2014 #
##########################################################... | gpl-2.0 |
av8ramit/tensorflow | tensorflow/python/estimator/inputs/queues/feeding_functions.py | 9 | 19123 | # Copyright 2016 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | apache-2.0 |
kyleabeauchamp/PMTStuff | code/test_cv_cluster.py | 1 | 1688 | import mixtape.featurizer, mixtape.tica, mixtape.cluster, mixtape.markovstatemodel, mixtape.ghmm
import numpy as np
import mdtraj as md
from parameters import load_trajectories, build_full_featurizer
import sklearn.pipeline, sklearn.externals.joblib
import mixtape.utils
n_choose = 100
stride = 1
lag_time = 1
trj0, tr... | gpl-2.0 |
h-mayorquin/mnist_dl_ann_project | plot_scripts/mlp_error.py | 1 | 17073 | import os
import sys
import time
import numpy
import matplotlib.pyplot as plt
import theano
import theano.tensor as T
from code.logistic_sgd import LogisticRegression, load_data
# start-snippet-1
class HiddenLayer(object):
def __init__(self, rng, input, n_in, n_out, W=None, b=None,
activation... | bsd-2-clause |
wd15/extremefill2D | extremefill2D/viewer.py | 1 | 6880 | import os
import tables
from extremefill2D.dicttable import DictTable
import pylab
import numpy as np
from sumatra.projects import load_project
class BaseViewer(object):
def __init__(self, basedatafile=None, datafiles=None, labels=None, times=None, colors=None):
self.times = times
self.data = []... | mit |
mmathioudakis/geotopics | visualization/utils.py | 1 | 11233 | import json
import sys
import numpy as np
from matplotlib import mlab
from mpl_toolkits.basemap import Basemap
from sklearn.preprocessing import StandardScaler
from model import ModelParameters
from visualization import smopy
__author__ = 'emre'
def create_probability_grid(x_min, x_max, y_min, y_max, scaler: Stand... | mit |
bioinfo-core-BGU/neatseq-flow_modules | neatseq_flow_modules/Liron/cgMLST_and_MLST_typing_module/MLST_parser.py | 3 | 8400 | import os, re
import argparse
import pandas as pd
parser = argparse.ArgumentParser(description='Pars MLST')
parser.add_argument('-M', type=str,
help='MetaData file')
parser.add_argument('-F', type=str,
help='Merged MLST typing file')
parser.add_argument('-O' , type=str, defaul... | gpl-3.0 |
erscott/RASLseqTools | RASLseqTools/RASLseqAnalysis_STAR.py | 1 | 20131 |
import pandas as pd
import os,sys
import numpy as np
import argparse
import subprocess
import multiprocessing as mp
import sys,os
import time
import inspect
source_dir = os.path.dirname(os.path.abspath(inspect.getfile(inspect.currentframe())))
source_dir = '/'.join(source_dir.split('/')[:-1])
sys.path.append(source... | mit |
mutirri/bokeh | sphinx/source/docs/tutorials/exercises/stocks.py | 23 | 2098 | ###
### NOTE: This exercise requires a network connection
###
import numpy as np
import pandas as pd
from bokeh.plotting import figure, output_file, show, VBox
# Here is some code to read in some stock data from the Yahoo Finance API
AAPL = pd.read_csv(
"http://ichart.yahoo.com/table.csv?s=AAPL&a=0&b=1&c=2000&d=... | bsd-3-clause |
Obus/scikit-learn | examples/ensemble/plot_adaboost_hastie_10_2.py | 355 | 3576 | """
=============================
Discrete versus Real AdaBoost
=============================
This example is based on Figure 10.2 from Hastie et al 2009 [1] and illustrates
the difference in performance between the discrete SAMME [2] boosting
algorithm and real SAMME.R boosting algorithm. Both algorithms are evaluate... | bsd-3-clause |
patricksnape/menpo | menpo/image/base.py | 2 | 131364 | from typing import Iterable, Optional
from warnings import warn
import PIL.Image as PILImage
import numpy as np
from menpo.base import MenpoDeprecationWarning, Vectorizable, copy_landmarks_and_path
from menpo.landmark import Landmarkable
from menpo.shape import PointCloud, bounding_box
from menpo.transform import (
... | bsd-3-clause |
jmetzen/scikit-learn | examples/gaussian_process/plot_compare_gpr_krr.py | 67 | 5191 | """
==========================================================
Comparison of kernel ridge and Gaussian process regression
==========================================================
Both kernel ridge regression (KRR) and Gaussian process regression (GPR) learn
a target function by employing internally the "kernel trick... | bsd-3-clause |
dfm/python-fsps | demos/specbymass.py | 4 | 6026 | # This demo shows how to make a plot of the fractional contribution of differnt
# stellar mass ranges to the total spectrum, for different properties of the
# stellar population. There is also some use of the filter objects.
from itertools import product
import numpy as np
import matplotlib.pyplot as pl
import fsps
... | mit |
noelevans/sandpit | outlier_comparison.py | 1 | 3120 | import numpy as np
from scipy import stats
import matplotlib.pyplot as plt
import matplotlib.font_manager
from sklearn import svm
from sklearn.covariance import EllipticEnvelope
# from sklearn.ensemble import IsolationForest
rng = np.random.RandomState(42)
# Example settings
n_samples = 200
outliers_fraction = 0.25
... | mit |
sheshant/cuda-convnet2 | shownet.py | 180 | 18206 | # Copyright 2014 Google Inc. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or... | apache-2.0 |
qifeigit/scikit-learn | sklearn/feature_selection/tests/test_rfe.py | 209 | 11733 | """
Testing Recursive feature elimination
"""
import warnings
import numpy as np
from numpy.testing import assert_array_almost_equal, assert_array_equal
from nose.tools import assert_equal, assert_true
from scipy import sparse
from sklearn.feature_selection.rfe import RFE, RFECV
from sklearn.datasets import load_iris,... | bsd-3-clause |
xiaoxiamii/scikit-learn | sklearn/metrics/tests/test_common.py | 83 | 41144 | from __future__ import division, print_function
from functools import partial
from itertools import product
import numpy as np
import scipy.sparse as sp
from sklearn.datasets import make_multilabel_classification
from sklearn.preprocessing import LabelBinarizer
from sklearn.utils.multiclass import type_of_target
fro... | bsd-3-clause |
phobson/statsmodels | statsmodels/tsa/filters/filtertools.py | 25 | 12438 | # -*- coding: utf-8 -*-
"""Linear Filters for time series analysis and testing
TODO:
* check common sequence in signature of filter functions (ar,ma,x) or (x,ar,ma)
Created on Sat Oct 23 17:18:03 2010
Author: Josef-pktd
"""
#not original copied from various experimental scripts
#version control history is there
fr... | bsd-3-clause |
jreback/pandas | pandas/tests/tools/test_to_datetime.py | 2 | 93371 | """ test to_datetime """
import calendar
from collections import deque
from datetime import datetime, timedelta
import locale
from dateutil.parser import parse
from dateutil.tz.tz import tzoffset
import numpy as np
import pytest
import pytz
from pandas._libs import tslib
from pandas._libs.tslibs import iNaT, parsing... | bsd-3-clause |
seberg/numpy | numpy/lib/npyio.py | 3 | 89674 | import os
import re
import functools
import itertools
import warnings
import weakref
import contextlib
from operator import itemgetter, index as opindex
from collections.abc import Mapping
import numpy as np
from . import format
from ._datasource import DataSource
from numpy.core import overrides
from numpy.core.multi... | bsd-3-clause |
miqlar/PyFME | examples/example_002.py | 2 | 3381 | # -*- coding: utf-8 -*-
"""
Python Flight Mechanics Engine (PyFME).
Copyright (c) AeroPython Development Team.
Distributed under the terms of the MIT License.
Example
-------
Cessna 310, ISA1976 integrated with Flat Earth (euler angles).
Example with trimmed aircraft: stationary descent, symmetric, wings level
fligh... | mit |
markovmodel/PyEMMA | pyemma/coordinates/clustering/interface.py | 1 | 12437 |
# This file is part of PyEMMA.
#
# Copyright (c) 2015, 2014 Computational Molecular Biology Group, Freie Universitaet Berlin (GER)
#
# PyEMMA is free software: you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as published by
# the Free Software Foundation, either vers... | lgpl-3.0 |
dotsdl/msmbuilder | msmbuilder/cluster/kcenters.py | 3 | 6519 | # Author: Robert McGibbon <rmcgibbo@gmail.com>
# Contributors:
# Copyright (c) 2014, Stanford University
# All rights reserved.
#-----------------------------------------------------------------------------
# Imports
#-----------------------------------------------------------------------------
from __future__ import... | lgpl-2.1 |
jmmauricio/pypstools | build/lib/pypstools/publisher.py | 2 | 62263 | """ Tools for plotting and publishing power system simulations and analysis results.
(c) 2015 Juan Manuel Mauricio
https://www.packtpub.com/books/content/plotting-geographical-data-using-basemap
"""
from __future__ import division, print_function
import numpy as np
import scipy.linalg
import matplotlib.pyplot as p... | gpl-3.0 |
themrmax/scikit-learn | examples/tree/plot_tree_regression.py | 82 | 1562 | """
===================================================================
Decision Tree Regression
===================================================================
A 1D regression with decision tree.
The :ref:`decision trees <tree>` is
used to fit a sine curve with addition noisy observation. As a result, it
learns ... | bsd-3-clause |
ly-atdawn/Show-and-Tell | model.py | 1 | 21110 | #-*- coding: utf-8 -*-
import math
import os
import tensorflow as tf
import numpy as np
import pandas as pd
import cPickle
import glob
import time
import random
from nltk.translate.bleu_score import *
# from tensorflow.models.rnn import rnn_cell # Error! use tf.nn.rnn_cell
import tensorflow.python.platform
from keras.... | bsd-2-clause |
numenta/nupic.research | projects/whydense/cifar/mobilenet_noise_test.py | 3 | 11901 | # Numenta Platform for Intelligent Computing (NuPIC)
# Copyright (C) 2019, Numenta, Inc. Unless you have an agreement
# with Numenta, Inc., for a separate license for this software code, the
# following terms and conditions apply:
#
# This program is free software: you can redistribute it and/or modify
# it unde... | agpl-3.0 |
mmottahedi/neuralnilm_prototype | scripts/e428.py | 2 | 6834 | from __future__ import print_function, division
import matplotlib
import logging
from sys import stdout
matplotlib.use('Agg') # Must be before importing matplotlib.pyplot or pylab!
from neuralnilm import (Net, RealApplianceSource,
BLSTMLayer, DimshuffleLayer,
Bidirectio... | mit |
protossw512/bio-project | transfer_learning/train_xinyao.py | 1 | 14442 | import tensorflow as tf
from tensorflow.contrib.framework.python.ops.variables import get_or_create_global_step
from tensorflow.python.platform import tf_logging as logging
import inception_preprocessing
from inception_resnet_v2 import inception_resnet_v2, inception_resnet_v2_arg_scope
import os
import time
import gpum... | mit |
dch312/scipy | scipy/stats/_discrete_distns.py | 5 | 20508 | #
# Author: Travis Oliphant 2002-2011 with contributions from
# SciPy Developers 2004-2011
#
from __future__ import division, print_function, absolute_import
from scipy import special
from scipy.special import entr, gammaln as gamln
from numpy import floor, ceil, log, exp, sqrt, log1p, expm1, tanh, cosh, s... | bsd-3-clause |
dmnfarrell/epitopepredict | epitopepredict/config.py | 2 | 5239 | #!/usr/bin/env python
"""
epitopepredict config
Created March 2016
Copyright (C) Damien Farrell
This program is free software; you can redistribute it and/or
modify it under the terms of the GNU General Public License
as published by the Free Software Foundation; either version 3
of the Lic... | apache-2.0 |
h2020-westlife-eu/west-life-wp6 | wp6-virtualfolder/conf-template/home/vagrant/.jupyter/jupyter_notebook_config.py | 1 | 22651 | # Configuration file for jupyter-notebook.
#------------------------------------------------------------------------------
# Application(SingletonConfigurable) configuration
#------------------------------------------------------------------------------
## This is an application.
## The date format used by logging f... | mit |
cdd1969/pygwa | lib/flowchart/nodes/n05_timeseriescurve/node_makeTimeseriesCurve.py | 1 | 5448 | #!/usr/bin python
# -*- coding: utf-8 -*-
from pyqtgraph import BusyCursor, PlotDataItem
from pyqtgraph import functions as fn
from pyqtgraph.Qt import QtCore
import numpy as np
import pandas as pd
from lib.flowchart.nodes.generalNode import NodeWithCtrlWidget, NodeCtrlWidget
from lib.functions.general import isNumpyD... | gpl-2.0 |
MatthieuBizien/scikit-learn | sklearn/utils/deprecation.py | 77 | 2417 | import warnings
__all__ = ["deprecated", ]
class deprecated(object):
"""Decorator to mark a function or class as deprecated.
Issue a warning when the function is called/the class is instantiated and
adds a warning to the docstring.
The optional extra argument will be appended to the deprecation mes... | bsd-3-clause |
courtarro/gnuradio | gr-fec/python/fec/polar/channel_construction_bec.py | 22 | 8068 | #!/usr/bin/env python
#
# Copyright 2015 Free Software Foundation, Inc.
#
# GNU Radio is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 3, or (at your option)
# any later version.
#
# GNU Radio is... | gpl-3.0 |
herilalaina/scikit-learn | sklearn/gaussian_process/tests/test_gpr.py | 22 | 13791 | """Testing for Gaussian process regression """
# Author: Jan Hendrik Metzen <jhm@informatik.uni-bremen.de>
# License: BSD 3 clause
import numpy as np
from scipy.optimize import approx_fprime
from sklearn.gaussian_process import GaussianProcessRegressor
from sklearn.gaussian_process.kernels \
import RBF, Constan... | bsd-3-clause |
averagehat/scikit-bio | skbio/stats/ordination/_base.py | 4 | 16284 | # ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
# --------------------------------------------... | bsd-3-clause |
joshua-cogliati-inl/raven | framework/Optimizers/GradientBasedOptimizer.py | 1 | 52237 | # Copyright 2017 Battelle Energy Alliance, LLC
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed t... | apache-2.0 |
mortbauer/openfoam-extend-Breeder-other-scripting-PyFoam | PyFoam/Basics/PlotTimelinesFactory.py | 2 | 3565 | # ICE Revision: $Id$
"""Creates subclasses of GeneralPlotTimelines"""
from PyFoam.Basics.GnuplotTimelines import GnuplotTimelines
from PyFoam.Basics.MatplotlibTimelines import MatplotlibTimelines
from PyFoam.Basics.XkcdMatplotlibTimelines import XkcdMatplotlibTimelines
from PyFoam.Basics.QwtPlotTimelines import QwtPl... | gpl-2.0 |
Barmaley-exe/scikit-learn | sklearn/datasets/lfw.py | 28 | 17953 | """Loader for the Labeled Faces in the Wild (LFW) dataset
This dataset is a collection of JPEG pictures of famous people collected
over the internet, all details are available on the official website:
http://vis-www.cs.umass.edu/lfw/
Each picture is centered on a single face. The typical task is called
Face Veri... | bsd-3-clause |
dbaranchuk/hnsw | plots/graphic_sift_PQ16_R1.py | 1 | 2232 | OIMI_R1_txt = '''
0.2540
0.2879
0.3245
0.3455
0.3625
0.3675
0.3712
0.3723
'''
OIMI_T_txt = '''
1.43
1.59
1.97
2.53
4.24
6.61
12.8
21.1
'''
IVF2M_R1_txt = '''
0.1942
0.2353
0.2764
0.3165
0.3476
0.3574
0.3635
0.3660
'''
IVF2M_T_txt = '''
0.30
0.32
0.43
0.54
1.04
1.55
2.95
4.21
'''
IVF4M_R1_txt = '''
0.2188
0.2615
0.313... | apache-2.0 |
Titan-C/sphinx-gallery | doc/conf.py | 1 | 12656 | # -*- coding: utf-8 -*-
#
# Sphinx-Gallery documentation build configuration file, created by
# sphinx-quickstart on Mon Nov 17 16:01:26 2014.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
# autogenerated file... | bsd-3-clause |
leesavide/pythonista-docs | Documentation/matplotlib/mpl_examples/axes_grid/demo_axes_hbox_divider.py | 7 | 1547 | import numpy as np
import matplotlib.pyplot as plt
from mpl_toolkits.axes_grid1.axes_divider import HBoxDivider
import mpl_toolkits.axes_grid1.axes_size as Size
def make_heights_equal(fig, rect, ax1, ax2, pad):
# pad in inches
h1, v1 = Size.AxesX(ax1), Size.AxesY(ax1)
h2, v2 = Size.AxesX(ax2), Size.Ax... | apache-2.0 |
Dekken/tick | doc/sphinxext/numpy_ext/docscrape_sphinx.py | 408 | 8061 | import re
import inspect
import textwrap
import pydoc
from .docscrape import NumpyDocString
from .docscrape import FunctionDoc
from .docscrape import ClassDoc
class SphinxDocString(NumpyDocString):
def __init__(self, docstring, config=None):
config = {} if config is None else config
self.use_plots... | bsd-3-clause |
caisq/tensorflow | tensorflow/contrib/learn/python/learn/estimators/estimator_input_test.py | 46 | 13101 | # Copyright 2016 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | apache-2.0 |
kyleam/seaborn | seaborn/matrix.py | 2 | 40924 | """Functions to visualize matrices of data."""
import itertools
import colorsys
import matplotlib as mpl
import matplotlib.pyplot as plt
from matplotlib import gridspec
import numpy as np
import pandas as pd
from scipy.spatial import distance
from scipy.cluster import hierarchy
from .axisgrid import Grid
from .palett... | bsd-3-clause |
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