getTagMatrixWill: getTagMatrixWill
In WilliamSalvidge/dictyChipSeq: What the Package Does (One Line, Title Case)
getTagMatrixWill R Documentation
getTagMatrixWill
Description
getTagMatrixWill
Usage
getTagMatrixWill(peak, weightCol = NULL, windows, flip_minor_strand = TRUE)
Arguments
peak
peak GRanges file. Will probably be in the anno GRange from the output of annotatePeaksSeq or addExtraAnnotation
weightCol
?
windows
GRanges object of promoters - output from makeDictyPromotersGRangesObject()
flip_minor_strand
flips tags so there all in the same direction. E.g if the output was 000000111111 and the strand is negative it will become 111111000000
Value
list of a tagMatrix, which will be used to make a plot and a GRanges object of windows / promoters.
This GRanges object now has the index column. The index column should map between the tagMatrix rowname and the value in this column.
This can be used to reverse engineer what promoter belongs to what gene.
WilliamSalvidge/dictyChipSeq documentation built on March 28, 2023, 1:27 a.m.
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| getTagMatrixWill | R Documentation |
getTagMatrixWill
Description
getTagMatrixWill
Usage
getTagMatrixWill(peak, weightCol = NULL, windows, flip_minor_strand = TRUE)
Arguments
peak |
peak GRanges file. Will probably be in the anno GRange from the output of annotatePeaksSeq or addExtraAnnotation |
weightCol |
? |
windows |
GRanges object of promoters - output from makeDictyPromotersGRangesObject() |
flip_minor_strand |
flips tags so there all in the same direction. E.g if the output was 000000111111 and the strand is negative it will become 111111000000 |
Value
list of a tagMatrix, which will be used to make a plot and a GRanges object of windows / promoters. This GRanges object now has the index column. The index column should map between the tagMatrix rowname and the value in this column. This can be used to reverse engineer what promoter belongs to what gene.
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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