nanomath

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

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)

pip install nanomath

or

conda install -c bioconda nanomath

@alexomics for fixing the indentation of the printed stats

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

Name		Name	Last commit message	Last commit date
Latest commit History 110 Commits
nanomath		nanomath
.gitignore		.gitignore
.travis.yml		.travis.yml
LICENSE		LICENSE
MANIFEST.in		MANIFEST.in
README.md		README.md
setup.cfg		setup.cfg
setup.py		setup.py