###Description of workflow
- Download orthogroups based on gene accessions listed in wanted_accessions.txt
- Filter out genes based on species listed in wanted_species.txt
- Clean out duplicate sequences and low-scoring scaffolds
- Align the sequences using MUSCLE
###How to use
In a terminal, type make download to download OrthoMCL groupings of wanted
orthogroups from here and
place them in the data/ directory. Data files may also be manually placed in
the data/ directory. After data files are added to data/ the program may be
run using make FNA or make FAA if you have DNA or AA data.