SuperAlign: Utility for Creating a concatenated alignment from Fasta...

View source: R/SuperAlign.R

SuperAlignR Documentation

Utility for Creating a concatenated alignment from Fasta Alignments

Description

Parse through a directory of FASTA files to combine into one alignment

Usage

SuperAlign(aligned_dir, missing_df)

Arguments

aligned_dir

Directory where fasta alignments can be found

missing_df

Missing data object made by the missing function

filename

String for what you want to name your output, default is "superalign.phy"

Value

Reads through the full table found in folders ./busco_results/run_Busco* and returns a dataframe of the results

Author(s)

Dustin J Wcisel, djwcisel@ncsu.edu

James Thomas Howard, jthowar3@ncsu.edu

Jeffrey A Yoder, jayoder@ncsu.edu

Alex Dornburg, dornburgalex@gmail.com

Examples

partition_df <- SuperAlign(aligned_dir, missing_df, filename="myalignment.phy")

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