README.md

Helmut A Carter's Bioinformatics Utilities Portfolio

motif_counter.py

To use: edit the variables at the top with your motif of interest and query sequence.

Dependencies:

• None.

rMATS2HOMER.py

Purpose: Accepts rMATS output and converts into sequence files that can be used by HOMER, a motif enrichment discovery program.

Dependencies:

• pyfaidx pip install pyfaidx
• Biopython pip install biopython

rMATS_compare.py

Purpose: Accepts rMATS output for two different species and compares alternative splicing events between the two species to predict which events are orthologous.

Dependencies:

• pyfaidx pip install pyfaidx
• Biopython pip install biopython