deb_control_files:
- control
- md5sums
- postinst
- prerm
deb_fields:
Architecture: all
Depends: python3-biopython, python3-numpy, python3-pandas, python3-pysam, python3:any,
python3-nanomath
Description: |-
extract information from Oxford Nanopore sequencing data and alignments
The Python3 module nanoget provides functions to extract useful metrics
from Oxford Nanopore sequencing reads and alignments.
.
Data can be presented in the following formats, using the following functions:
.
* sorted bam file process_bam(bamfile, threads)
* standard fastq file process_fastq_plain(fastqfile, 'threads')
* fastq file with metadata from MinKNOW or Albacore
process_fastq_rich(fastqfile)
* sequencing_summary file generated by Albacore
process_summary(sequencing_summary.txt, 'readtype')
.
Fastq files can be compressed using gzip, bzip2 or bgzip. The data is
returned as a pandas DataFrame with standardized headernames for
convenient extraction. The functions perform logging while being called
and extracting data.
Homepage: https://github.com/wdecoster/nanoget
Installed-Size: '51'
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Package: python3-nanoget
Priority: optional
Section: python
Source: python-nanoget
Version: 1.16.1-2
srcpkg_name: python-nanoget
srcpkg_version: 1.16.1-2