biohazard: bioinformatics support library

[ bioinformatics, bsd3, library ] [ Propose Tags ]

This is a collection of modules I separated from various bioinformatics tools. The hope is to make them reusable and easier to maintain. Also includes some of these tools and a bunch that work on mitochondrial sequences.

Versions [faq] 0.6.1, 0.6.2, 0.6.3, 0.6.5, 0.6.6, 0.6.6.1, 0.6.9, 0.6.10, 0.6.13, 0.6.15, 0.6.16, 1.0.0, 1.0.1, 1.0.2, 1.0.3, 1.0.4, 1.1.0, 1.1.1, 2.0 (info)
Dependencies aeson (>=0.7 && <0.9), async (==2.0.*), attoparsec (>=0.10 && <0.13), base (>=4.5 && <4.10), binary (>=0.7 && <0.9), biohazard, bytestring (>=0.10.2 && <0.11), bytestring-mmap (>=0.2 && <1.0), containers (>=0.4.1 && <0.6), deepseq (>=1.3 && <1.5), directory (>=1.2 && <2.0), exceptions (>=0.6 && <0.9), filepath (>=1.3 && <2.0), hashable (>=1.0 && <1.3), hmatrix (==0.16.*), iteratee (>=0.8.9.6 && <0.8.10), ListLike (>=3.0 && <5.0), nonlinear-optimization (==0.3.*), primitive (>=0.5 && <0.7), random (>=1.0 && <1.2), scientific (==0.3.*), stm (==2.4.*), strict (==0.3.*), template-haskell (==2.*), text (>=1.0 && <2.0), transformers (>=0.3 && <0.6), unix (>=2.5 && <2.8), unordered-containers (>=0.2.3 && <0.3), Vec (==1.*), vector (>=0.9 && <0.11), vector-algorithms (>=0.3 && <1.0), vector-th-unbox (==0.2.*), zlib (>=0.5 && <0.7) [details]
License BSD-3-Clause
Copyright (C) 2010-2016 Udo Stenzel
Author Udo Stenzel
Maintainer udo.stenzel@eva.mpg.de
Category Bioinformatics
Home page http://github.com/udo-stenzel/biohazard
Source repo head: git clone https://bitbucket.org/ustenzel/biohazard.git
this: git clone https://bitbucket.org/ustenzel/biohazard.git(tag 0.6.6)
Uploaded by ustenzel at Tue May 31 19:49:13 UTC 2016
Distributions NixOS:2.0
Executables mt-ccheck, mt-anno, jivebunny, fastq2bam, bam-trim, bam-rmdup, bam-rewrap, bam-resample, bam-meld, bam-fixpair, afroengineer, gt-scan, redeye-single, redeye-pileup, redeye-div, redeye-dar
Downloads 5893 total (441 in the last 30 days)
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Status Hackage Matrix CI
Docs not available [build log]
All reported builds failed as of 2016-11-24 [all 1 reports]

Modules

  • Bio
    • Bio.Adna
    • Bio.Align
    • Bio.Bam
      • Bio.Bam.Evan
      • Bio.Bam.Fastq
      • Bio.Bam.Filter
      • Bio.Bam.Header
      • Bio.Bam.Index
      • Bio.Bam.Pileup
      • Bio.Bam.Reader
      • Bio.Bam.Rec
      • Bio.Bam.Regions
      • Bio.Bam.Rmdup
      • Bio.Bam.Trim
      • Bio.Bam.Writer
    • Bio.Base
    • Bio.Genocall
      • Bio.Genocall.AvroFile
      • Bio.Genocall.Metadata
    • Bio.Iteratee
      • Bio.Iteratee.Bgzf
      • Bio.Iteratee.Builder
      • Bio.Iteratee.ZLib
    • Bio.PriorityQueue
    • Bio.TwoBit
    • Util
      • Bio.Util.AD
      • Bio.Util.AD2
      • Bio.Util.Numeric
      • Bio.Util.Regex
  • Data
    • Data.Avro
    • Data.MiniFloat

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