clairemcwhite

library(tidygraph)
library(tidyverse)
library(ggraph)
library(dendextend)
library(igraph)

palette_OkabeIto <- c("#E69F00", "#56B4E9", "#009E73", "#F0E442", "#0072B2", "#D55E00", "#CC79A7", "#999999")

cut_df <- function(dendrogram, height, c){

naught101

'''
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).

These computations rely on nearest-neighbor statistics
'''
import numpy as np

insertinterestingnamehere

import numpy as np
import ctypes as ct
from scipy.linalg import cython_blas

#ct.cdll.LoadLibrary("libopenblas.dll")
#openblas = ct.CDLL("libopenblas.dll")
#dgemm = openblas.dgemm

ct.pythonapi.PyCapsule_GetPointer.restype = ct.c_void_p
ct.pythonapi.PyCapsule_GetPointer.argtypes = [ct.py_object, ct.c_char_p]

AustinRochford

jqtrde

Libraries for a modern geospatial workflow

Distribution

• Writing, Running, and Distributing
• Tox driven development
• Publishing python libraries

Numpy

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.

jseabold

import numpy as np
from scipy import special, stats
from statsmodels.base.model import GenericLikelihoodModel

def vuong_test(p1, p2):
    r"""
    Vuong-test for non-nested models.

    Parameters
    ----------

martijnvermaat

Download SRA run files for given sample names

Have all sample names in samples, one per line and run:

for sample in $(cat samples); do
    IFS=$'\n'
    for line in $(./sra-runs.py $sample); do
        echo $sample $line >> runs

done