pythonGeneSeekr

The geneSeekr has very few requirements:

1. Python
2. BioPython
3. Sequence (genome) files
4. Target files
5. ?

There are three flags that must be provided when running the program from a system other than my own. These flag override hard-coded paths.

• -p - the location you want the report folder created and populated
• -s - the location of your query sequence files (must have a .fa* extension)
• -t - the location of your target sequence files (must have a .fa* extension)

There is one additional flag, which allows you to customise the analysis

• -c - the percent identity cutoff value to determine presence/absence of gene targets