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python-nanoget package

python-nanoget 1.19.3-1 source package in Ubuntu

Changelog

python-nanoget (1.19.3-1) unstable; urgency=medium

  [ Andreas Tille ]
  * Team Upload.
  * New upstream version (Closes: #1044056)
  * Standards-Version: 4.6.2 (routine-update)
  * Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update)

  [ Nilesh Patra ]
  * Update missing source from nanotest repo
  * Add missing-sources copyright
  * gunzip mixed test suite file
  * Versioned depends on pandas

 -- Nilesh Patra <email address hidden>  Sun, 04 Feb 2024 12:05:21 +0000

Upload details

Uploaded by:
Debian Med
Uploaded to:
Sid
Original maintainer:
Debian Med
Architectures:
all
Section:
misc
Urgency:
Medium Urgency

See full publishing history Publishing

Series Pocket Published Component Section
Oracular release universe misc
Noble release universe misc

Builds

Noble: [FULLYBUILT] amd64

Downloads

File Size SHA-256 Checksum
python-nanoget_1.19.3-1.dsc 1.6 KiB 7a740c08c94edc8415ac115224b9db5cf02c95068e47ce89414f9bef6f34dd8b
python-nanoget_1.19.3.orig.tar.xz 21.0 KiB dee4abd2e9b6fd4b22dc67f2c0caed0a54ad9da9c3b309bd33cb346e282f5cbb
python-nanoget_1.19.3-1.debian.tar.xz 25.0 MiB 2422855cb85984eef2dd47f79d45345bd7190172de70828b13840af912bd7ef3

Available diffs

No changes file available.

Binary packages built by this source

python3-nanoget: 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.

python3-nanoget-examples: example data for python3-nanoget (dealing with Oxford Nanopore data)

 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.
 .
 This package just contains an example script and the data to run the example.