data_file_4.sh (1.98 kB)

POCP calculation for two genomes

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posted on 21.01.2017, 20:16 by Anony Moose
This script takes two FASTA files of predicted gene sequences that have been converted to amino acids and calculates the POCP value (Qin et al. 2014; Journal of Bacteriology). The script also takes the number of CPUs to be used for BLASTing as a third parameter. The '_HH' is included at the end of all intermediate files to guarantee that the file names are unique, ensuring that existing files do not get overwritten.

EXAMPLE: ./POCP.sh genes_A.faa genes_B.faa 10

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