[ Bron: python-nanoget ]
Pakket: python3-nanoget (1.19.3-1)
Verwijzigingen voor python3-nanoget
Debian bronnen:
Het bronpakket python-nanoget downloaden:
- [python-nanoget_1.19.3-1.dsc]
- [python-nanoget_1.19.3.orig.tar.xz]
- [python-nanoget_1.19.3-1.debian.tar.xz]
Beheerders:
- Debian Med Packaging Team (QA-pagina, Mailarchief)
- Andreas Tille (QA-pagina)
- Étienne Mollier (QA-pagina)
Externe bronnen:
- Homepage [github.com]
Vergelijkbare pakketten:
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.
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