calc_adapter_content: Compute adapter content in reads. This function is only...
In compbiocore/qckitfastq: FASTQ Quality Control
Description
Usage
Arguments
Value
Examples
Description
Compute adapter content in reads. This function is only available for macOS/Linux.
Usage
1
calc_adapter_content(infile, adapters)
Arguments
infile
filepath to fastq sequence
adapters
filepath to adapters
Value
map object with adapter names as the key and the number of times the adapters appears in the reads as the value
Examples
1
2
3
4
5
if(.Platform$OS.type != "windows") {
adapter_file <- system.file("extdata", "adapters.txt", package = "qckitfastq")
infile <- system.file("extdata", "test.fq.gz", package = "qckitfastq")
content <- calc_adapter_content(infile, adapter_file)
}
compbiocore/qckitfastq documentation built on Sept. 20, 2019, 9:30 a.m.
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Description Usage Arguments Value Examples
Description
Compute adapter content in reads. This function is only available for macOS/Linux.
Usage
1 | calc_adapter_content(infile, adapters)
|
Arguments
infile |
filepath to fastq sequence |
adapters |
filepath to adapters |
Value
map object with adapter names as the key and the number of times the adapters appears in the reads as the value
Examples
1 2 3 4 5 | if(.Platform$OS.type != "windows") {
adapter_file <- system.file("extdata", "adapters.txt", package = "qckitfastq")
infile <- system.file("extdata", "test.fq.gz", package = "qckitfastq")
content <- calc_adapter_content(infile, adapter_file)
}
|
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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