trimSummary: Summary of Fastq adapter and low quality trimming
In Rfastp: An Ultra-Fast and All-in-One Fastq Preprocessor (Quality Control, Adapter, low quality and polyX trimming) and UMI Sequence Parsing).
Description
Usage
Arguments
Value
Author(s)
Examples
Description
generate a data frame of the Fastq trim summary.
Usage
1
trimSummary(json)
Arguments
json
the output json of function rfastq. [json]
Value
a data frame.
Author(s)
Wei Wang
Examples
1
2
3
4
5
outputPrefix <- tempfile(tmpdir = tempdir())
se_read1 <- system.file("extdata","Fox3_Std_small.fq.gz",package="Rfastp")
se_json_report <- rfastp(read1 = se_read1, outputFastq = outputPrefix,
thread = 4, adapterSequenceRead1 = 'GTGTCAGTCACTTCCAGCGG')
trim_summary <- trimSummary(se_json_report)
Rfastp documentation built on Nov. 8, 2020, 5:52 p.m.
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Description Usage Arguments Value Author(s) Examples
Description
generate a data frame of the Fastq trim summary.
Usage
1 | trimSummary(json)
|
Arguments
json |
the output json of function rfastq. [json] |
Value
a data frame.
Author(s)
Wei Wang
Examples
1 2 3 4 5 | outputPrefix <- tempfile(tmpdir = tempdir())
se_read1 <- system.file("extdata","Fox3_Std_small.fq.gz",package="Rfastp")
se_json_report <- rfastp(read1 = se_read1, outputFastq = outputPrefix,
thread = 4, adapterSequenceRead1 = 'GTGTCAGTCACTTCCAGCGG')
trim_summary <- trimSummary(se_json_report)
|
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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