findFa: Convenience wrapper for Rsamtools FaFile
In ORFik: Open Reading Frames in Genomics
Description
Usage
Arguments
Value
See Also
Examples
View source: R/utils_imports.R
Description
Get fasta file object, to find sequences in file.
Will load and import file if necessarry.
Usage
1
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.wiggle(),
fimport(),
fread.bed(),
optimizeReads(),
readBam(),
readWig()
Examples
1
2
3
# Some fasta genome with existing fasta index in same folder
path <- system.file("extdata", "genome.fasta", package = "ORFik")
findFa(path)
ORFik documentation built on March 27, 2021, 6 p.m.
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Description Usage Arguments Value See Also Examples
View source: R/utils_imports.R
Description
Get fasta file object, to find sequences in file.
Will load and import file if necessarry.
Usage
1 | findFa(faFile)
|
Arguments
faFile |
|
Value
a FaFile or BSgenome
See Also
Other utils:
bedToGR(),
convertToOneBasedRanges(),
export.bed12(),
export.wiggle(),
fimport(),
fread.bed(),
optimizeReads(),
readBam(),
readWig()
Examples
1 2 3 | # Some fasta genome with existing fasta index in same folder
path <- system.file("extdata", "genome.fasta", package = "ORFik")
findFa(path)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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