fasta2dataframe: Conversion of (mothur) fasta files to a dataframe

In CMET-UGent/CMETNGS: Convenience functions for CMET NGS automated pipeline

Description

Conversion of (mothur) fasta files to a dataframe

Usage

fasta2dataframe(fastaFile, mothurrepseqs = TRUE, striparg = "Otu")

Arguments

fastaFile	standard format DNA (not RNA/protein) fasta file
mothurrepseqs	boolean indicating wether or not the file contains mothur-formatted headers for each sequence as generated by get.oturep. Defaults to TRUE.
striparg	string to be kept as headers in more complex headers (allows for regex), ignored in case mothurrepseqs=TRUE (default)

Examples

## Short example

# Load precomputed example data
#TODO: add export option

CMET-UGent/CMETNGS documentation built on Dec. 12, 2020, 8:22 a.m.