| utils.read.fasta {dartR.base} | R Documentation |
An internal script to read a fastA file into a genlight object
Description
WARNING: UTILITY SCRIPTS ARE FOR INTERNAL USE ONLY AND SHOULD NOT BE USED BY END USERS AS THEIR USE OUT OF CONTEXT COULD LEAD TO UNPREDICTABLE OUTCOMES.
Usage
utils.read.fasta(file, parallel = parallel, n.cores = NULL, verbose = verbose)
Arguments
file |
Name of the fastA file [required] |
parallel |
Switch to deactivate parallel version. It might not be worth to run it parallel most of the times [default FALSE] |
n.cores |
Number of cores to use in parallel [default 4] |
verbose |
Verbosity: 0, silent, fatal errors only; 1, flag function begin and end; 2, progress log; 3, progress and results summary; 5, full report [default 2 or as specified using gl.set.verbosity]. |
Value
The resultant genlight object
Author(s)
Custodian: Luis Mijangos (Post to https://groups.google.com/d/forum/dartr)
See Also
Other utilities:
gl.alf(),
utils.check.datatype(),
utils.dart2genlight(),
utils.dist.binary(),
utils.flag.start(),
utils.hamming(),
utils.het.pop(),
utils.impute,
utils.is.fixed(),
utils.jackknife(),
utils.n.var.invariant(),
utils.plot.save(),
utils.read.ped(),
utils.recalc.avgpic(),
utils.recalc.callrate(),
utils.recalc.freqhets(),
utils.recalc.freqhomref(),
utils.recalc.freqhomsnp(),
utils.recalc.maf(),
utils.reset.flags(),
utils.transpose()