findConsensusReads: Find consensus reads A function to analyze consensus read...
In umiAnalyzer: Tools for Analyzing Sequencing Data with Unique Molecular Identifiers
Description
Usage
Arguments
Value
Examples
Description
Find consensus reads
A function to analyze consensus read tables generated with parseBamFiles or
a UMIexperiment object containing reads.
Usage
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findConsensusReads(
object,
consDepth = 0,
groupBy = c("none", "sample", "position", "both"),
pattern = NULL
)
Arguments
object
Either a tibble generated with parseBamFiles or a UMIexperiment object
consDepth
Minimum consensus depth to keep. Default is 0.
groupBy
Should data be grouped by position, sample, both or not at all.
pattern
Regular expression
Value
A data table
Examples
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library(umiAnalyzer)
main <- system.file("extdata", package = "umiAnalyzer")
simsen <- createUmiExperiment(main, importBam = TRUE)
reads <- findConsensusReads(simsen)
reads
umiAnalyzer documentation built on Nov. 25, 2021, 9:07 a.m.
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Description Usage Arguments Value Examples
Description
Find consensus reads A function to analyze consensus read tables generated with parseBamFiles or a UMIexperiment object containing reads.
Usage
1 2 3 4 5 6 | findConsensusReads(
object,
consDepth = 0,
groupBy = c("none", "sample", "position", "both"),
pattern = NULL
)
|
Arguments
object |
Either a tibble generated with parseBamFiles or a UMIexperiment object |
consDepth |
Minimum consensus depth to keep. Default is 0. |
groupBy |
Should data be grouped by position, sample, both or not at all. |
pattern |
Regular expression |
Value
A data table
Examples
1 2 3 4 5 6 | library(umiAnalyzer)
main <- system.file("extdata", package = "umiAnalyzer")
simsen <- createUmiExperiment(main, importBam = TRUE)
reads <- findConsensusReads(simsen)
reads
|
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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