countMatrix: countMatrix
In shiauck/cummeRbund_on_RSQLite2.0: Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
Description
Usage
Arguments
Details
Value
Note
Author(s)
References
Examples
Description
Retrieve count values as gene by condition matrix
Usage
1
2
3
4
## S4 method for signature 'CuffData'
countMatrix(object,fullnames=FALSE,sampleIdList)
## S4 method for signature 'CuffData'
repCountMatrix(object,fullnames=FALSE,repIdList)
Arguments
object
An object of class ('CuffData','CuffFeatureSet','CuffGeneSet','CuffGene',or 'CuffFeature')
fullnames
A logical value whether or not to concatenate gene_short_name and tracking_id values (easier to read labels)
sampleIdList
A vector of sample names to subset the resulting matrix.
repIdList
A vector of replicate names to subset the resulting replicate matrix.
Details
None.
Value
A feature x condition matrix of count values.
Note
None
Author(s)
Loyal A. Goff
References
None.
Examples
1
2
3
data(sampleData)
countMatrix(sampleGeneSet)
repCountMatrix(sampleGeneSet)
shiauck/cummeRbund_on_RSQLite2.0 documentation built on May 5, 2019, 12:33 p.m.
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Description Usage Arguments Details Value Note Author(s) References Examples
Description
Retrieve count values as gene by condition matrix
Usage
1 2 3 4 | ## S4 method for signature 'CuffData'
countMatrix(object,fullnames=FALSE,sampleIdList)
## S4 method for signature 'CuffData'
repCountMatrix(object,fullnames=FALSE,repIdList)
|
Arguments
object |
An object of class ('CuffData','CuffFeatureSet','CuffGeneSet','CuffGene',or 'CuffFeature') |
fullnames |
A logical value whether or not to concatenate gene_short_name and tracking_id values (easier to read labels) |
sampleIdList |
A vector of sample names to subset the resulting matrix. |
repIdList |
A vector of replicate names to subset the resulting replicate matrix. |
Details
None.
Value
A feature x condition matrix of count values.
Note
None
Author(s)
Loyal A. Goff
References
None.
Examples
1 2 3 | data(sampleData)
countMatrix(sampleGeneSet)
repCountMatrix(sampleGeneSet)
|
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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