faircloth-lab Goto Github PK

2011-fairclothetal-systbiol-uce

[Unsupported] Code used in Faircloth et al. Ultraconserved Elements Anchor Genetics Markers

alfred_zotquery

An Alfred workflow to interact with a user's Zotero data.

basespace

An alternative python mechanism to access the Illumina BaseSpace API

bioconda-recipes

Conda recipes for the bioconda channel.

bird-db

the application and database underlying birds.faircloth-lab.org

blog-theme

This repo has moved to better place - the_minimum theme for jekyll

cactus

Official home of genome aligner based upon notion of Cactus graphs

cactus-prepare-parser

A quick python script to generate SLURM submission scripts from `cactus-prepare` stdout

chopsuey

Virtual digests of DNA

colony2-helpers

code to help run colony2

conda-recipes

bioinformatics program recipes for the conda package manager

cookiecutter-protocols

a cookiecutter template for a protocols package

cookiecutter-supermike-exabayes

cookiecutter-supermike-examl

cyverse

Various Docker Files For CyVerse Discovery Environment

data-theme

demuxipy

Locate, error-correct, trim, and organize (hierarchically) sequence-tagged next-generation DNA reads

dimensions

Code associated with our NSF Dimensions of Biodiversity grant

dockerfiles

Docker files that we use

edittag

edit distance sequence tags and helpers

exa-helpers

freebayes

Bayesian haplotype-based polymorphism discovery and genotyping.

illumiprocessor

pre-process illumina reads

index-counters

Variety of Code for Counting Illumina Index Sequences

itero

A strongly opinionated, iterative, guided contig assembly pipeline. Integrates (+error-correction), bwa-mem, bedtools, and samtools. MPI and multiprocessing aware.

meta

mod-primer3

modified primer3 version that tracks primer3.sourceforge.net trunk

mp-est

modified version of mpest with CLI parameters

msatcommander-gs

A grown-up version of msatcommander for genome-scale data

pd-ht