Brent Pedersen - Bioinformatics
Author or maintainer of the following packages:
aclust
Aclust
======
Streaming agglomerative clustering with custom distance and correlation
*Agglomerati...
anaconda-build
UNKNOWN
bcbio-nextgen
.. image:: artwork/github.png
:alt: bcbio banner
:align: center
Validated, scalable, communit...
bcolz
bcolz provides columnar and compressed data containers. Column
storage allows for efficiently query...
binstar
UNKNOWN
binstar-build
UNKNOWN
bsub
bsub
====
python wrapper to submit jobs to bsub (and later qsub)
Authors
------
@brentp, @brwnj
...
carray
carray is a chunked container for numerical data. Chunking allows for
efficient enlarging/shrinking...
cigar
Cigar
=====
cigar is a simple library for dealing with cigar strings. the most useful
feature now i...
CNVkit
conda
.. NOTE: This file serves both as the README on GitHub and the index.html for
conda.pydata.org. I...
conda-build
===========
conda-build
===========
.. image:: https://travis-ci.org/conda/conda-build.svg?branch=m...
cruzdb
A rendered version of the docs is available at: http://pythonhosted.org/cruzdb/
A paper describing ...
Cython
The Cython language makes writing C extensions for the Python language as
easy as Python itself. Cy...
cyvcf
CyVCF
======
A Cython port of the PyVCF library maintained by @jamescasbon.
The goal of this proje...
cyvcf2
cyvcf2
======
Fast python **(2 and 3)** parsing of VCF and BCF including region-queries.
[![Build ...
fisher
Fisher's Exact Test
===================
Simple, fast implementation of `Fisher's exact test
geneimpacts
Given multiple snpEff or VEP or BCFTools consequence annotations for a single variant, get an ordera...
ggd
# ggd-cli
The command-line interface to GGD. Build and check recipes.
### Installation
This assum...
goatools
Python scripts to find enrichment of GO terms
interlap
interlap: fast, simple interval overlap testing
mendelianerror
probability of mendelian error in trios
nwalign
Needleman-Wunsch global sequence alignment
peddy
pleasingly pythonic pedigree manipulation
pipe
Module enablig a sh like infix syntax (using pipes)
pyensembl
Python interface to ensembl reference genome metadata
pyfaidx
pyfaidx: efficient pythonic random access to fasta subsequences
pyfasta
fast, memory-efficient, pythonic (and command-line) access to fasta sequence files
PyVCF
Variant Call Format (VCF) parser for Python
redis
Python client for Redis key-value store
Rtree
R-Tree spatial index for Python GIS
simpletable
wrapper around pytables/hd5f to simplify using structured data
skidmarks
find runs (non-randomness) in sequences
slurmpy
submit jobs to slurm with python
tc
Python bindings to the Tokyo Cabinet database library
toolshed
Tools for data
totable
Cython wrapper for tokyo cabinet table
Impact Percentile
97
Number of Packages
37
Package Downloads
8,934
Citations
26