data_file_4.sh (1.98 kB)
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POCP calculation for two genomes

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posted on 21.01.2017, 20:16 authored by Anony MooseAnony 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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