WatsonWoo

3DSRNGTool

Pokemon 3DS RNG Tool

awesome-courses

:books: List of awesome university courses for learning Computer Science!

bedtools-protocols

bio_scripts

Practical, reusable scripts for bioinformatics

BugBase

classifier

RDP extensible sequence classifier for fungal lsu, bacterial and archaeal 16s

edmr

Optimized DMR analysis based on bimodal normal distribution model and cost function for regional methylation analysis.

Learning-Perl-Sample-Files

Extra files for use with Learning Perl

MetaMicrobiome

MetaMicrobiome: an R package for the meta-analysis and visualization of microbiome.

mothuR-1

R package to work with output files from mothur

motifStack.documentation

documentation of motifStack

MVP

A Memory-efficient, Visualization-enhanced, and Parallel-accelerated Tool For Genome-Wide Association Study

Phylo_Wrapper_Scripts

Scripts to help automate various phylogenetic or phylogeography programs (Admixture, RAxML, CLUMPP + DISTRUCT). Also includes a script for replacing sample or taxon names in input files.

PopLDdecay

PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files

psmc

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

qiime

Official QIIME 1 software repository. QIIME 2 (https://qiime2.org) has succeeded QIIME 1 as of January 2018.

RDPTools

Collection of commonly used RDP Tools for easy building

Reseqtools

A Toolkit for analyzing next-generation DNA Re-Sequencing data

rna-seq-diff-exprn

RNA-Sequencing data differential expression analysis pipeline. Performs: genome coverage (via bedtools and HTSeq), generates Circos code and plots, differential expression (via DESeq and NOISeq), structural variant detection (e.g. fusion genes, via SVDetect) and differential exon usage (via DEXSeq).

rush

A cross-platform command-line tool for executing jobs in parallel

STAMP

Statistical Analysis of Metagenomic Profiles

Structure_Clumpp_Spatial_mapping_R

Rmarkdown scripts and test files for running STRUCTURE analysis, combining replicates with CLUMPP, and generating assignment barplots and spatial interpolation of ancestry coefficient

tidytree

:shower:A Tidy Tool for Phylogenetic Tree Data Manipulation

treeio

Tree.io