Package: ea-utils
Version: 1.1.2+dfsg-10
Architecture: amd64
Maintainer: Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
Original-Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 668
Depends: libc6 (>= 2.38), libgcc-s1 (>= 3.3.1), libgsl28 (>= 2.8+dfsg), libstdc++6 (>= 14), zlib1g (>= 1:1.2.3.4), r-base-core, r-cran-getopt, r-cran-hmisc, r-cran-lattice, r-cran-survival, r-cran-formula, r-cran-ggplot2
Recommends: med-config
Section: science
Priority: optional
Homepage: https://expressionanalysis.github.io/ea-utils/
Description: command-line tools for processing biological sequencing data
 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.
