annotatePeaksSeq: annotatePeaksSeq
In WilliamSalvidge/dictyChipSeq: What the Package Does (One Line, Title Case)
View source: R/annotatePeaksSeq.R
annotatePeaksSeq R Documentation
annotatePeaksSeq
Description
Takes in GRanges object of ChIP-seq peaks and annotates them based on a D.Discoideum TxDb object
coming from makeDictyGrangesfromTxDb.
Usage
annotatePeaksSeq(x, tssRegionStart = -3000, tssRegionEnd = 3000)
Arguments
x
GRanges object
tssRegionStart
number : default is -3000bp - what is set by ChIPseeker::annotatePeak - can be changed!
tssRegionEnd
number : default is 3000bp - what is set by ChIPseeker::annotatePeak - can be changed!
Details
The seqnames returned by makeDictyGrangesfromTxDb are 1, 2, 3, 4, 5, 6 and so I change the input seqnames
to match before converting them back to what they were previously after.
WilliamSalvidge/dictyChipSeq documentation built on March 28, 2023, 1:27 a.m.
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View source: R/annotatePeaksSeq.R
| annotatePeaksSeq | R Documentation |
annotatePeaksSeq
Description
Takes in GRanges object of ChIP-seq peaks and annotates them based on a D.Discoideum TxDb object coming from makeDictyGrangesfromTxDb.
Usage
annotatePeaksSeq(x, tssRegionStart = -3000, tssRegionEnd = 3000)
Arguments
x |
GRanges object |
tssRegionStart |
number : default is -3000bp - what is set by ChIPseeker::annotatePeak - can be changed! |
tssRegionEnd |
number : default is 3000bp - what is set by ChIPseeker::annotatePeak - can be changed! |
Details
The seqnames returned by makeDictyGrangesfromTxDb are 1, 2, 3, 4, 5, 6 and so I change the input seqnames to match before converting them back to what they were previously after.
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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