• The gkno launcher for executing tools or pipelines

    Python 33 7 Updated Jan 17, 2017
  • JavaScript 2 1 Updated Dec 5, 2016
  • Human genome reference build GRCh38/hg38

    Updated Sep 28, 2016
  • Human genome reference build GRCh37/hg19

    Updated Sep 28, 2016
  • C 1 55 Updated Jul 19, 2016
  • vcflib

    Forked from vcflib/vcflib

    a simple C++ library for parsing and manipulating VCF files

    C++ 100 Updated Jun 24, 2016
  • Mirror of snpEff variant annotation and effect prediction tool.

    Perl Updated Nov 24, 2015
  • gkno resources for use in tutorials

    Updated Nov 12, 2015
  • vt

    Forked from atks/vt

    A tool set for short variant discovery in genetic sequence data.

    C 18 Updated Nov 3, 2015
  • Bayesian haplotype-based polymorphism discovery and genotyping.

    C++ 1 113 Updated Aug 30, 2015
  • gkno resources for Homo sapiens

    Updated Jun 5, 2015
  • Scripts for generating genomic regions for use with other tools.

    Shell 1 Updated Apr 27, 2015
  • wham

    Forked from zeeev/wham

    All-things-BAM

    C++ 15 Updated Apr 21, 2015
  • samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.

    C++ 17 Updated Dec 23, 2014
  • RUFUS k-mer based genomic variant detection

    C++ 1 3 Updated Dec 7, 2014
  • gemini

    Forked from arq5x/gemini

    a lightweight db framework for disease and population genetics.

    Python 83 Updated Nov 17, 2014
  • A powerful toolset for genome arithmetic.

    C++ 148 Updated Nov 14, 2014
  • Helper repo for fetching NCBI BLAST binaries (http://blast.ncbi.nlm.nih.gov/Blast.cgi)

    Updated Nov 11, 2014
  • Tools (written in C using htslib) for manipulating next-generation sequencing data

    C 266 Updated Nov 11, 2014
  • C library for high-throughput sequencing data formats

    C 178 Updated Nov 10, 2014
  • Library for handling tool and pipeline configuration files

    Python 1 Updated Oct 28, 2014
  • Parse a 1000G sequence index and produce files for use with gkno

    Shell Updated Oct 12, 2014
  • lumpy: a general probabilistic framework for structural variant discovery

    C 48 Updated Oct 3, 2014
  • C++ 1 Updated Sep 24, 2014
  • pindel

    Forked from genome/pindel

    Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-gen sequence data. It uses a pattern growth approach to identify the breakpoints of these variants from paired-end short reads.

    SystemVerilog 35 Updated Aug 27, 2014
  • Mirror of Genome STRiP from the Broad Institute

    Updated Jun 19, 2014
  • bwa

    Forked from lh3/bwa

    Burrow-Wheeler Aligner

    C 231 Updated Jun 4, 2014
  • Fast Structural Variation Detection Toolbox

    C++ 4 Updated Jun 4, 2014
  • A set of scripts available within gkno

    Updated Jun 3, 2014
  • mutatrix

    Forked from ekg/mutatrix

    genome simulation across a population with zeta-distributed allele frequency, snps, insertions, deletions, and multi-nucleotide polymorphisms

    C++ 2 Updated May 23, 2014