FastaIntoPhy: Utility for turning fasta file into phylip file

In carolinafishes/toast: Transcriptome Ortholog Alignment Sequence Tools

Utility for turning fasta file into phylip file

Description

Utility for turning fasta file into phylip file

Usage

FastaIntoPhy(
  fastafile = "myfastadata",
  filename = "file_name",
  externalfile = TRUE
)

Arguments

fastafile	defaults to myfastadata
filename	defaults to file_name
externalfile	defaults to TRUE

Value

This function uses an aligned fasta file that is either in your working directory externalfile=TRUE or that has been read into memory, externalfile=false. This then converts it to a phylip format for iqtree using the user specifed filename

Author(s)

Alex Dornburg, [e-mail]

Examples

FastaIntoPhy(fastafile=myfastadata, filename="file_name",externalfile=TRUE)

carolinafishes/toast documentation built on June 28, 2023, 8:10 p.m.