python3-nanoget-examples
example data for python3-nanoget (dealing with Oxford Nanopore data)
Description
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.Upload more screenshots
Please help extend the collection of screenshots. Just make a screenshot and upload it here. You don't need to register or anything.
Upload a screenshotHint: upload an image here from your clipboard with Ctrl-V
Homepage
https://github.com/wdecoster/nanoget
Install this software package
If the package is available for the distribution you are currently using on your computer then install the software by clicking on…
Install python3-nanoget-examples