countFeatureSet: countFeatureSet counts overlaps between 'GRangesObject' and...
In AdrijaK/omicsWrappers: wrapper functions for integrating and visualising ChIPseq, ATACseq, Hi-C, pcHi-C and RNAseq data
Description
Usage
Arguments
Value
View source: R/countFeatureSet.R
Description
countFeatureSet
counts overlaps between GRangesObject and three cathegories of peaks from snakePipes results directory specified by ChipNamesVector
The three cathegories of peaks are: snakePipesDir/DiffBind_all.tsv (peaks_none, which are all peaks minus UP and DOWNregulated peaks), snakePipesDir/DiffBind_UP.FilteredResults.tsv (peaks_up), snakePipesDir/DiffBind_DOWN.FilteredResults.tsv (peaks_down) <- make correct the filenames
Usage
1
countFeatureSet(GRangesObject, ChipNamesVector)
Arguments
GRangesObject
...
ChipNamesVector
...
Value
a data.frame with nrows of GRangesObject and ncols of 3*length(listOfChIPs) with counts of overlaps
AdrijaK/omicsWrappers documentation built on July 22, 2020, 2:11 p.m.
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Description Usage Arguments Value
View source: R/countFeatureSet.R
Description
countFeatureSet
counts overlaps between GRangesObject and three cathegories of peaks from snakePipes results directory specified by ChipNamesVector
The three cathegories of peaks are: snakePipesDir/DiffBind_all.tsv (peaks_none, which are all peaks minus UP and DOWNregulated peaks), snakePipesDir/DiffBind_UP.FilteredResults.tsv (peaks_up), snakePipesDir/DiffBind_DOWN.FilteredResults.tsv (peaks_down) <- make correct the filenames
Usage
1 | countFeatureSet(GRangesObject, ChipNamesVector)
|
Arguments
GRangesObject |
... |
ChipNamesVector |
... |
Value
a data.frame with nrows of GRangesObject and ncols of 3*length(listOfChIPs) with counts of overlaps
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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