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A few simple math function for other Oxford Nanopore processing scripts

Project description

This module provides a few simple math and statistics functions for other scripts processing Oxford Nanopore sequencing data

Twitter URL install with conda Build Status Code Health

FUNCTIONS

  • Calculate read N50 from a set of lengths get_N50(readlenghts)
  • Remove extreme length outliers from a dataset remove_length_outliers(dataframe, columname)
  • Calculate the average Phred quality of a read ave_qual(qualscores)
  • Write out the statistics report after calling readstats function write_stats(dataframe, outputname)
  • Compute a number of statistics, return a dictionary calc_read_stats(dataframe)

INSTALLATION

pip install nanomath
or
install with conda
conda install -c bioconda nanomath

STATUS

Build Status Code Health

CITATION

If you use this tool, please consider citing our publication.

Project details


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Filename, size & hash SHA256 hash help File type Python version Upload date
nanomath-0.21.0.tar.gz (4.1 kB) Copy SHA256 hash SHA256 Source None Mar 20, 2018

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