getPwmFromFastaFile: generates a pwm from a FASTA file

Description Usage Arguments Value Examples

View source: R/utilities.R

Description

generates a pwm from a FASTA file

Usage

1
getPwmFromFastaFile(filename, alphabet = NULL)

Arguments

filename

the FASTA file

alphabet

the desired alphabet of type Alphabet

Value

a pwm

Examples

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fileName = "extdata/alignments/F-box_bacteria.seq.fa"
file = system.file(fileName, package = "DiffLogo")
pwm = getPwmFromFastaFile(file)

Example output

Loading required package: cba
Loading required package: grid
Loading required package: proxy

Attaching package:proxyThe following objects are masked frompackage:stats:

    as.dist, dist

The following object is masked frompackage:base:

    as.matrix

DiffLogo documentation built on Nov. 8, 2020, 6:09 p.m.