[Debian-med-packaging] Bug#793585: ITP: ea-utils -- command-line tools for processing biological sequencing data

[Andreas Tille]

Package: wnpp
Severity: wishlist
Owner: Andreas Tille <tille at debian.org>

* Package name    : ea-utils
  Version         : 1.1.2
  Upstream Author : Erik Aronesty <erik at q32.com>
* URL             : https://code.google.com/p/ea-utils/
* License         : MIT
  Programming Lang: C
  Description     : command-line tools for processing biological sequencing data
i Ea-utils provides a set of command-line tools for processing biological
 sequencing data, barcode demultiplexing, adapter trimming, etc.
 .
 Primarily written to support an Illumina based pipeline - but should work with
 any FASTQs.
 .
 Main Tools are:
 .
  * fastq-mcf
 Scans a sequence file for adapters, and, based on a log-scaled threshold,
 determines a set of clipping parameters and performs clipping. Also does
 skewing detection and quality filtering.
  * fastq-multx
 Demultiplexes a fastq. Capable of auto-determining barcode id's based on a
 master set fields. Keeps multiple reads in-sync during demultiplexing. Can
 verify that the reads are in-sync as well, and fail if they're not.
  * fastq-join
 Similar to audy's stitch program, but in C, more efficient and supports some
 automatic benchmarking and tuning. It uses the same "squared distance for
 anchored alignment" as other tools.
  * varcall
 Takes a pileup and calculates variants in a more easily parameterized manner
 than some other tools.


This package was prepared by Tim Booth for BioLinux to update the qiime
package.  It is taken over into the Debian Med team and will be maintained
at

   git://anonscm.debian.org/debian-med/ea-utils.git