atropos 1.1.31+dfsg-5 source package in Ubuntu
Changelog
atropos (1.1.31+dfsg-5) unstable; urgency=medium * Team upload * Switch to cython3-legacy. Closes: g#1056788 -- Bas Couwenberg <email address hidden> Sat, 09 Dec 2023 18:15:49 +0100
Upload details
- Uploaded by:
- Debian Med
- Uploaded to:
- Sid
- Original maintainer:
- Debian Med
- Architectures:
- any
- Section:
- misc
- Urgency:
- Medium Urgency
See full publishing history Publishing
Series | Published | Component | Section |
---|
Downloads
File | Size | SHA-256 Checksum |
---|---|---|
atropos_1.1.31+dfsg-5.dsc | 2.2 KiB | 23e88c91d60cd5e9a3042844a2101bcd9e352cb8ffb6b0b4332d989b2c1f7bc6 |
atropos_1.1.31+dfsg.orig.tar.xz | 3.0 MiB | d59fb286c59461cb87ca9c86aed09f3a108f92ba800a6de424a3dd65f88f704b |
atropos_1.1.31+dfsg-5.debian.tar.xz | 6.8 KiB | be28a6495d144597b178c0ccfc1a1f7e8f1b0ee3a6e2bb0f2f07249505fcacce |
Available diffs
- diff from 1.1.31+dfsg-4 to 1.1.31+dfsg-5 (450 bytes)
No changes file available.
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.
- atropos-dbgsym: debug symbols for atropos