1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
|
Source: biobambam2
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>,
Étienne Mollier <etienne.mollier@mailoo.org>
Section: science
Priority: optional
Build-Depends: debhelper-compat (= 13),
pkg-config,
libmaus2-dev
Standards-Version: 4.5.1
Vcs-Browser: https://salsa.debian.org/med-team/biobambam2
Vcs-Git: https://salsa.debian.org/med-team/biobambam2.git
Homepage: https://gitlab.com/german.tischler/biobambam2
Rules-Requires-Root: no
Package: biobambam2
Architecture: any
Depends: ${shlibs:Depends},
${misc:Depends}
Description: tools for early stage alignment file processing
This package contains some tools for processing BAM files, including
.
bamsormadup: parallel sorting and duplicate marking
bamcollate2: reads BAM and writes BAM reordered such that alignment
or collated by query name
bammarkduplicates: reads BAM and writes BAM with duplicate alignments
marked using the BAM flags field
bammaskflags: reads BAM and writes BAM while masking (removing) bits
from the flags column
bamrecompress: reads BAM and writes BAM with a defined compression
setting. This tool is capable of multi-threading.
bamsort: reads BAM and writes BAM resorted by coordinates or
query name
bamtofastq: reads BAM and writes FastQ; output can be collated
or uncollated by query name
|
