Package: wnpp Severity: wishlist Subject: ITP: python-nanoget -- extract information from Oxford Nanopore sequencing data and alignments Package: wnpp Owner: Andreas Tille <ti...@debian.org> Severity: wishlist
* Package name : python-nanoget Version : 1.12.1 Upstream Author : Wouter De Coster <decosterwou...@gmail.com> * URL : https://github.com/wdecoster/nanoget * License : GPL-3+ Programming Lang: Python 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. Remark: This package is maintained by Debian Med Packaging Team at https://salsa.debian.org/med-team/python-nanoget