atropos 1.1.21+dfsg-1 source package in Ubuntu

Changelog

atropos (1.1.21+dfsg-1) unstable; urgency=medium

  * Initial release (Closes: #926944)

 -- Andreas Tille <email address hidden>  Sun, 04 Aug 2019 21:50:09 +0200

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Uploaded by:
Debian Med
Uploaded to:
Sid
Original maintainer:
Debian Med
Architectures:
any
Section:
misc
Urgency:
Medium Urgency

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File Size SHA-256 Checksum
atropos_1.1.21+dfsg-1.dsc 2.0 KiB c38e39ce4afa8926b8ab3e4e804979072f10696231de8a4f444255b4355e34df
atropos_1.1.21+dfsg.orig.tar.xz 3.0 MiB 0f1bf09ef32fb86485fd089186556341ed0b8000cf26a03929cf338762042605
atropos_1.1.21+dfsg-1.debian.tar.xz 4.6 KiB 2a5d292514891c5251fb8a1bcd6ecae32b2f17a80f5354a3e7c91d8eef48f983

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Binary packages built by this source

atropos: NGS read trimming tool that is specific, sensitive, and speedy

 Atropos is tool for specific, sensitive, and speedy trimming of NGS
 reads. It is a fork of the venerable Cutadapt read trimmer, with the
 primary improvements being:
 .
   1. Multi-threading support, including an extremely fast "parallel
      write" mode.
   2. Implementation of a new insert alignment-based trimming algorithm
      for paired-end reads that is substantially more sensitive and
      specific than the original Cutadapt adapter alignment-based
      algorithm. This algorithm can also correct mismatches between the
      overlapping portions of the reads.
   3. Options for trimming specific types of data (miRNA, bisulfite-seq).
   4. A new command ('detect') that will detect adapter sequences and
      other potential contaminants.
   5. A new command ('error') that will estimate the sequencing error
      rate, which helps to select the appropriate adapter- and quality-
      trimming parameter values.
   6. A new command ('qc') that generates read statistics similar to
      FastQC. The trim command can also compute read statistics both
      before and after trimming (using the '--stats' option).
   7. Improved summary reports, including support for serialization
      formats (JSON, YAML, pickle), support for user-defined templates
      (via the optional Jinja2 dependency), and integration with MultiQC.
   8. The ability to merge overlapping reads (this is experimental and
      the functionality is limited).
   9. The ability to write the summary report and log messages to
      separate files.
  10. The ability to read SAM/BAM files and read/write interleaved
      FASTQ files.
  11. Direct trimming of reads from an SRA accession.
  12. A progress bar, and other minor usability enhancements.

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