• pre-process illumina reads

    Python 13 7 Updated Sep 22, 2017
  • A pretty strongly opinionated, iterative, guided contig assembly pipeline. Integrates spades (+error-correction), bwa-mem, bedtools, and samtools.

    Python Updated Sep 21, 2017
  • Our laboratory repository

    Python 2 Updated Sep 1, 2017
  • software for UCE (and general) phylogenomics

    Python 20 23 Updated Aug 18, 2017
  • Variety of Code for Counting Illumina Index Sequences

    Python Updated Aug 3, 2017
  • Tally Approximations of Phylogenetic Informativeness Rapidly (TAPIR)

    Python 3 Updated Jan 28, 2017
  • edit distance sequence tags and helpers

    Python 4 2 Updated Dec 7, 2016
  • Virtual digests of DNA

    Python Updated Jul 20, 2016
  • Software for processing data from RADcap

    Python Updated Apr 21, 2016
  • bioinformatics program recipes for the conda package manager

    Python 2 3 Updated Jun 16, 2015
  • Shell 1 Updated Jun 3, 2015
  • Python 2 Updated May 22, 2015
  • demultiplex massively parallel sequencing data

    Python 5 Updated Nov 25, 2014
  • Shell Updated Oct 7, 2014
  • Python Updated Jul 23, 2014
  • Python Updated Jun 28, 2014
  • parallel, automated SH-testing

    Python Updated Jun 23, 2014
  • An Alfred workflow to interact with a user's Zotero data.

    AppleScript 12 Updated Jun 7, 2014
  • Code for designing UCE probes

    Python Updated May 6, 2014
  • Python Updated Mar 3, 2014
  • the application and database underlying birds.faircloth-lab.org

    Python 5 1 Updated Mar 2, 2014
  • a cookiecutter template for a protocols package

    Updated Feb 24, 2014
  • illumina library prep protocol

    Python Updated Feb 24, 2014
  • faircloth-lab protocols

    Python Updated Feb 24, 2014
  • Tools for sequence and alignment manipulation

    Python 7 3 Updated Feb 22, 2014
  • Bayesian haplotype-based polymorphism discovery and genotyping.

    C++ 127 Updated Dec 18, 2013
  • An alternative python mechanism to access the Illumina BaseSpace API

    Python Updated Oct 31, 2013
  • Python Updated May 1, 2013
  • Locate, error-correct, trim, and organize (hierarchically) sequence-tagged next-generation DNA reads

    Python 2 Updated Mar 31, 2013
  • Repository of different outgroup databases for use building UCE trees

    1 2 Updated Jan 31, 2013