generate_fa2tre

Generating phylogenetic tree from alignment file '.fa'

Usage

generate_fa2tre(
  fa_file = "data/alns/pspa_snf7.fa",
  out_file = "data/alns/pspa_snf7.tre"
)

Arguments

fa_file

Character. Path to file. Default is 'pspa_snf7.fa'

out_file

Details

The alignment file would need two columns: 1. accession + number and 2. alignment. The protein homolog accession to lineage mapping + file should have

Note

Please refer to the source code if you have alternate + file formats and/or column names.

Author

Janani Ravi, MolEcologist

Examples

if (FALSE) { # \dontrun{
generate_aln2tree("pspa_snf7.fa")
} # }