Jeffrey Hsu's repositories
qvalue
Converts p-values in q-values, see (Storey and Tibshirani, 2003)
data
Data and code behind the stories and interactives at FiveThirtyEight
CLEpy-Guide-to-Cleveland
CLEpy's guide to Cleveland
bx-python
Tools for manipulating biological data, particularly multiple sequence alignments
RUscripts
Scripts for implementing read until and other examples.
tensorflow
Computation using data flow graphs for scalable machine learning
poretools
a toolkit for working with Oxford nanopore data
Structural_Variant_Comparison
A tool to compare structural variants to those in public databases!
popstats
Population genetic summary statistics
nanocorrect
Experimental pipeline for correcting nanopore reads
mmseq
Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads
MISO
MISO: Mixture of Isoforms model for RNA-Seq isoform quantitation
Piffer_analysis
Understanding signatures of polygenic selection.
hmmlearn
Hidden Markov Models in Python, with scikit-learn like API
JuggleTracker
A python program using OpenCV which tracks juggling balls and counts catches as well as calculates siteswaps.
mpld3
D3 Renderings of Matplotlib Graphics
gemini
a lightweight db framework for disease and population genetics.
MACS
MACS -- Model-based Analysis of ChIP-Seq
argweaver
Sampling and manipulating genome-wide ancestral recombination graphs (ARGs)
nmatrix
Prototype numeric matrix library for Ruby via SciRuby
topaz
A high performance ruby, written in RPython
bioruby-ngs
This plugins is intended to wrap the common software used for Next Generation Sequencing data
llvmpy
Originally a github fork of the llvm-py repository from http://www.mdevan.org/llvm-py/index.html updated to work with LLVM 3.x. Since then it has changed significantly with multiple sub-projects.