readintronic: Read tRNA Intronic Gene Count Statistics

Description Usage Arguments Details Value Author(s) See Also Examples

Description

readintronic read-in anticodon count from tRNAscan-2.0 or similar summary files from GtRNAdb2 homepage

Usage

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readintronic(fileno = 156, chunksize = 1)

Arguments

fileno

Index number of html-file in the working directory

chunksize

The maximum number of lines of data to be read

Details

Puts gene count into a table according to anticodon sequence on tRNA. This functions works but on the summary files there are some not nicely behaving statistics where the new filtering methods have not been applied as for the fasta files.

Value

tRNA gene with introns count Table

Author(s)

Siegrist, F. and Cannarozzi, G. M. gina@cannarozzi.com

See Also

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

Examples

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filecount <- length(dir(pattern=".stats.html$"))
vir_optcodon <- as.list(rep(data.frame(x=0), times=filecount))
for (n in 1:filecount) vir_optcodon[[n]] <- readstats(n)
names(vir_optcodon) <- sapply(dir(pattern="stats.html$"), function(x) strsplit(x, "-")[[1]][1])

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