searchfafile: Search and Return a Fasta File Name from Partial Name

In fredysiegrist/statanacoseq: Statistical Analyses of Codon Usage in Custom Genome Sequences

Description

searchfafile searches fasta file name on GtRNAdb2 homepage

Usage

searchfafile(fam = "eukaryota", spec = "Hsapi19")

Arguments

fam	Taxonomy kingdom defining the folder on gtrnadb homepage
spec	Species identifier as pointer to .fa filename

Details

Import helper function to manage automatical downloading of fasta files.

Value

string with .fa file name

Author(s)

Siegrist, F. and Cannarozzi, G. M. [e-mail]

See Also

seqinr statanacoseq http://gtrnadb.ucsc.edu/GtRNAdb2/

Examples

for (i in virus) try(download.file(paste("http://gtrnadb.ucsc.edu/GtRNAdb2/genomes/viruses/", i, "/", searchfafile(fam='viruses', spec=i), sep=""), paste("viruses/", i, "-tRNAs.fa", sep="") ))

fredysiegrist/statanacoseq documentation built on May 16, 2019, 2:44 p.m.