findFa {ORFik} | R Documentation

## Convenience wrapper for Rsamtools FaFile

### Description

Get fasta file object, to find sequences in file.
Will load and import file if necessarry.

### Usage

    findFa(faFile)

### Arguments

`faFile` | `FaFile`, BSgenome, fasta/index file path or an ORFik `experiment`. This file is usually used to find the transcript sequences from some GRangesList.

### Value

a `FaFile` or BSgenome

### See Also

Other utils: `bedToGR()`, `convertToOneBasedRanges()`, `export.bed12()`, `export.bigWig()`, `export.wiggle()`, `fimport()`, `fread.bed()`, `optimizeReads()`, `readBam()`, `readBigWig()`, `readWig()`

### Examples

    # Some fasta genome with existing fasta index in same folder
    path <- system.file("extdata/Danio_rerio_sample", "genome_dummy.fasta", package = "ORFik")
    findFa(path)

[Package ORFik version 1.14.7 Index]