Complete documentation on how to run SuperCRUNCH is available at: https://github.com/dportik/SuperCRUNCH/wiki The following generalized commands were used to run the analysis. Please note that the `/Path/To/` should be changed to the actual file locations. This analysis simply removed markers with fewer than 75 sequences. ``` python Fasta_Filter_by_Min_Seqs.py -i /Path/To/6-Minimum-Sequences/input --min_seqs 75 -o /Path/To/6-Minimum-Sequences/output > Fasta_Filter_by_Min_Seqs.log ``` It produced the following results: ``` Found 119 total fasta files. Processing... 113 fasta files passed the minimum sequence filter (>=75 seqs). 6 fasta files failed the minimum sequence filter (>=75 seqs). Fasta files with >= 75 records have been copied to: /Users/dportik/Documents/Projects/FROGS2/7-Min-Seqs/Filtered-Fasta-Files Fasta files failing filter: MC1R_extracted_oneseq.fasta MYH_extracted_oneseq.fasta NPCL_B3GALT1_extracted_oneseq.fasta NPCL_FUT9_extracted_oneseq.fasta NPCL_ZBED4_extracted_oneseq.fasta ZFX_extracted_oneseq.fasta ```