GC-GCSkew_Calculator

Script to calculate GC content and GC-Skew in windows

This script produces BED files of GC% and GC-Skew in windows for plotting.

Requirements

You will need the following python packages to run the script:

• python 3
• Biopython

Usage example:

Standard usage:

 python GC-GCSkew_Calculator.py -f in.fasta --gc --gc-skew -w 1000 -o PREFIX

For help use:

 python GC-GCSkew_Calculator.py -h

Cite:

Please cite using the DOI: Meriam Guellil. (2021). MeriamGuellil/GC-GCSkew_Calculator. Zenodo. https://doi.org/10.5281/zenodo.5707565

References:

Cock, Peter J. A., Tiago Antao, Jeffrey T. Chang, Brad A. Chapman, Cymon J. Cox, Andrew Dalke, Iddo Friedberg, et al. 2009. “Biopython: Freely Available Python Tools for Computational Molecular Biology and Bioinformatics.” Bioinformatics 25 (11): 1422–23. https://doi.org/10.1093/bioinformatics/btp163.