readGeneInput {GeneRegionScan}R Documentation

Standardize reading of gene inputs

Description

Internal function that will standardise the input of the many different form of sequences that can be used in Bioconductor.

Usage

    readGeneInput(gene, genename=NULL)

Arguments

gene
genename

Details

This function is not meant to be run directly by the user. It will take a number of genes either as a vector of characters, a path to a FASTA format file, as a vector of DNAstrings or as a readFASTA format. It will then output them in FASTA format for use with other functions. Optional variable genename forces a new name.

The primary objective of this function is to make the sequence input simpler for other functions.

Value

A list of all sequences and their names, in exactly the same format as obtained with the readFASTA function of the Biostrings package.

Author(s)

Lasse Folkersen

See Also

geneRegionScan,plotOnGene

Examples


        somegene<-"ATACCTTGTAGGACCTGATGATAGATGCATAGTAATATCGTA"
        genename<-"My favourite gene"
        GeneRegionScan:::readGeneInput(somegene,genename=genename)


[Package GeneRegionScan version 1.0.0 Index]