prcTSS: _prcTSS()_
In TSRchitect: Promoter identification from large-scale TSS profiling data
Description
Usage
Arguments
Value
Description
An internal function, invoked via processTSS, that creates an
expression matrix for all TSSs within a given TSS experiment (in slot
tssTagData)
Usage
1
prcTSS(experimentName, n.cores, tssSet, writeTable)
Arguments
experimentName
- a S4 object of class tssObject containing
information in slot tssTagData
n.cores
the number of cores to be used for this job.
tssSet
- number of the dataset to be analyzed
writeTable
- if set to TRUE, writes a data frame containing
the TSSs positions and their abundance to your workspace
Value
prcTSS fills the slot experimentName@tssCountData[[tssSet]]
in the tssObject experimentName with a matrix of unique TSS positions
(rows) and observed tag counts in each position for data set tssSet;
precisely, each entry of the matrix consists of "seq" (chr), "TSS" (num),
"nTAGs" (num), and "strand" (+ or -), corresponding to the sequence
identifier, position, tag count, and strand,
respectively.
TSRchitect documentation built on Nov. 8, 2020, 8:11 p.m.
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Description Usage Arguments Value
Description
An internal function, invoked via processTSS, that creates an expression matrix for all TSSs within a given TSS experiment (in slot tssTagData)
Usage
1 | prcTSS(experimentName, n.cores, tssSet, writeTable)
|
Arguments
experimentName |
- a S4 object of class tssObject containing information in slot tssTagData |
n.cores |
the number of cores to be used for this job. |
tssSet |
- number of the dataset to be analyzed |
writeTable |
- if set to TRUE, writes a data frame containing the TSSs positions and their abundance to your workspace |
Value
prcTSS fills the slot experimentName@tssCountData[[tssSet]] in the tssObject experimentName with a matrix of unique TSS positions (rows) and observed tag counts in each position for data set tssSet; precisely, each entry of the matrix consists of "seq" (chr), "TSS" (num), "nTAGs" (num), and "strand" (+ or -), corresponding to the sequence identifier, position, tag count, and strand, respectively.
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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