Description Usage Arguments Value Examples
View source: R/FormatMCLFastas.R
Creates the composite fasta file for use in running OrthoMCL and/or submitting to www.orthomcl.org
1 | FormatMCLFastas(fa_dir, genbnk_id = 4)
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fa_dir |
Path to the directory where all raw GenBank files are stored. Note, all file names must be changed to a 4-letter code representing each species and have '.fasta' file descriptor |
genbnk_id |
(Only necessary for the deprecated version of fasta headers) The index of the sequence ID in the GenBank pipe-separated annotation line (default: 4) |
Returns nothing, but prints the path to the final OrthoMCL compatible fasta file
1 2 3 | dir <- system.file('extdata', 'fasta_dir', package='MAGNAMWAR')
dir <- paste(dir,'/',sep='')
formatted_file <- FormatMCLFastas(dir)
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