All predependencies for qiime 1.9? [Was: Bug#793585: ITP: ea-utils -- command-line tools for processing biological sequencing data]
Hi Tim,
I took over ea-utils from BioLinux PPA as you can see. Please test and
confirm that it works for you. Do you think all dependencies for qiime
1.9 are now ready since rdp-classifier was accepted now.
Kind regards
Andreas.
----- Forwarded message from Andreas Tille <tille@debian.org> -----
Date: Sat, 25 Jul 2015 12:23:22 +0200
From: Andreas Tille <tille@debian.org>
To: Debian Bug Tracking System <submit@bugs.debian.org>
Subject: Bug#793585: ITP: ea-utils -- command-line tools for processing biological sequencing data
X-Debian-PR-Message: report 793585
X-Debian-PR-Package: wnpp
X-Debian-PR-Keywords:
Package: wnpp
Severity: wishlist
Owner: Andreas Tille <tille@debian.org>
* Package name : ea-utils
Version : 1.1.2
Upstream Author : Erik Aronesty <erik@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
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