decodebiology

echo `date`;
dir=(`dirname $1`)

base=(`basename $1`)



echo "1/7 Preparing files";
cat $1 | sed 's/ "/\t/g' | sed 's/"; /\t/g' | cut -f1,4,5,7,10,12,16,18,22 | sed 's/";//' | awk '!x[$6]++' | awk '{print $6"\t"$0;}' > $dir/enst_annotation.tmp;

bzhr

{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": 1,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [

GaelVaroquaux

'''
Non-parametric computation of entropy and mutual-information

Adapted by G Varoquaux for code created by R Brette, itself
from several papers (see in the code).

This code is maintained at https://github.com/mutualinfo/mutual_info 
Please download the latest code there, to have improvements and 
bug fixes.

yong27

import multiprocessing
import pandas as pd
import numpy as np

def _apply_df(args):
    df, func, kwargs = args
    return df.apply(func, **kwargs)

def apply_by_multiprocessing(df, func, **kwargs):
    workers = kwargs.pop('workers')

tonious

/* Read this comment first: https://gist.github.com/tonious/1377667#gistcomment-2277101
 * 2017-12-05
 * 
 *  -- T.
 */

#define _XOPEN_SOURCE 500 /* Enable certain library functions (strdup) on linux.  See feature_test_macros(7) */

#include <stdlib.h>
#include <stdio.h>

marcelcaraciolo

def sigmoid(X):
    '''Compute the sigmoid function '''
    #d = zeros(shape=(X.shape))

    den = 1.0 + e ** (-1.0 * X)

    d = 1.0 / den

    return d