addCodonLine {HLAtools} | R Documentation |
Modifies cDNA alignment objects that are missing "AA codon" lines to include these lines in the correct location with the correct codon position information.
addCodonLine(cDNAalign, firstPos, afterLine = 8, codons = 25)
cDNAalign |
A matrix of cDNA alignment lines, generated from an alignment file that is missing "AA codon" lines. |
firstPos |
A numeric value identifying the position number of the transcript's N-terminal codon, based on a complete cDNA alignment in another release. |
afterLine |
A numeric value identifying the number of the line below the first "cDNA" line in the alignment. The default value is 8. |
codons |
A numeric value identifying the number of codons in each line of the nucleotide alignment. The default value is 25. |
A complete cDNA alignment data frame that includes "AA codon" rows.
For internal HLAtools use.