Alex-Rosenberg

import scipy.io as sio
import pandas as pd

#Load Data
data = sio.loadmat('<your path>/GSM3017261_150000_CNS_nuclei.mat')

#Digital Expression Matrix
DGE = data['DGE']

#Genes

daler

The MIT License (MIT)

Copyright (c) 2016 Ryan Dale

Permission is hereby granted, free of charge, to any person obtaining a copy
of this software and associated documentation files (the "Software"), to deal
in the Software without restriction, including without limitation the rights
to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
copies of the Software, and to permit persons to whom the Software is
furnished to do so, subject to the following conditions:

kantale

import os
import matplotlib
from matplotlib.patches import Circle, Wedge, Polygon, Rectangle
from matplotlib.collections import PatchCollection
import matplotlib.pyplot as plt

def karyoplot(karyo_filename, metadata={}, part=1):
	'''
	To create a karyo_filename go to: http://genome.ucsc.edu/cgi-bin/hgTables 

kdaily

# Code snippet to get chromosomal position and cytoband from gene symbols using
# biomaRt
# Kenneth Daily, 2014

library(biomaRt)

ensembl <- useMart("ensembl", dataset = "hsapiens_gene_ensembl")

# Only use standard human chromosomes
normal.chroms <- c(1:22, "X", "Y", "M")