biohazard: bioinformatics support library

[ bioinformatics, bsd3, library ] [ Propose Tags ] [ Report a vulnerability ]

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.

Modules

[Last Documentation]

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.Estimators
- Bio.Iteratee
  - Bio.Iteratee.Bgzf
  - Bio.Iteratee.Builder
  - Bio.Iteratee.ZLib
- Bio.Prelude
- Bio.PriorityQueue
- Bio.TwoBit
- Util
  - Bio.Util.AD
  - Bio.Util.AD2
  - Bio.Util.Jacobi
  - Bio.Util.Numeric
  - Bio.Util.Zlib
Paths_biohazard

Flags

Manual Flags

Name	Description	Default
debug	enable additional sanity checks	Disabled

Use -f <flag> to enable a flag, or -f -<flag> to disable that flag. More info

Downloads

biohazard-0.6.9.tar.gz [browse] (Cabal source package)
Package description (as included in the package)

Maintainer's Corner

Package maintainers

ustenzel

For package maintainers and hackage trustees

edit package information

Candidates

0.6.2, 0.6.3, 0.6.5, 0.6.6, 0.6.6.1, 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, 2.1

Versions [RSS]	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, 2.1 (info)
Dependencies	aeson (>=0.7 && <1.1), aeson-pretty (>=0.8 && <0.9), async (>=2.0 && <2.2), attoparsec (>=0.10 && <0.14), base (>=4.6 && <4.10), base-prelude (>=1.0 && <1.1), binary (>=0.7 && <0.9), biohazard, bytestring (>=0.10.2 && <0.11), bytestring-mmap (>=0.2 && <1.0), containers (>=0.4.1 && <0.6), directory (>=1.2 && <2.0), exceptions (>=0.6 && <0.9), filepath (>=1.3 && <2.0), hashable (>=1.0 && <1.3), hybrid-vectors (>=0.2 && <0.3), iteratee (>=0.8.9.6 && <0.8.10), ListLike (>=3.0 && <5.0), nonlinear-optimization (>=0.3 && <0.4), primitive (>=0.5 && <0.7), process, random (>=1.0 && <1.2), scientific (>=0.3 && <0.4), shake (>=0.15 && <0.16), stm (>=2.4 && <2.5), template-haskell (>=2 && <3), text (>=1.0 && <2.0), transformers (>=0.4.1 && <0.6), unix (>=2.5 && <2.8), unordered-containers (>=0.2.3 && <0.3), vector (>=0.11 && <0.12), vector-algorithms (>=0.3 && <1.0), vector-binary-instances (>=0.2 && <0.3), vector-th-unbox (>=0.2 && <0.3), zlib (>=0.5 && <0.7) [details]
Tested with	ghc ==7.8.4, ghc ==7.10.1, ghc ==8.0.1
License	BSD-3-Clause
Copyright	(C) 2010-2017 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 0.6.9)
Uploaded	by ustenzel at 2017-01-06T17:23:58Z
Distributions
Reverse Dependencies	1 direct, 0 indirect [details]
Executables	mt-ccheck, mt-anno, jivebunny, fastq2bam, bam-trim, bam-rmdup, bam-rewrap, bam-resample, bam-meld, bam-fixpair, afroengineer, redeye-flow, redeye-single, redeye-dar, test-pileup
Downloads	12498 total (44 in the last 30 days)
Rating	(no votes yet) [estimated by Bayesian average]
Your Rating	λ λ λ
Status	Docs not available [build log] All reported builds failed as of 2017-01-06 [all 3 reports]