get_UTR3TotalCov {InPAS} | R Documentation |
extract 3' UTR coverage from totalCov according to the GenomicRanges::GRanges object utr3.
get_UTR3TotalCov( utr3, totalCov, BPPARAM = NULL, gcCompensation = NA, mappabilityCompensation = NA, FFT = FALSE, fft.sm.power = 20 )
utr3 |
An object of GenomicRanges::GRangesList. It must be the
output of |
totalCov |
total coverage for each sample. It must be a list of the
output of |
BPPARAM |
an optional BiocParallel::BiocParallelParam instance determining the parallel back-end to be used during evaluation, or a list of BiocParallelParam instances, to be applied in sequence for nested calls to bplapply. It can be set to NULL or bpparam() |
gcCompensation |
GC compensation vector. Not support yet. |
mappabilityCompensation |
mappability compensation vector. Not support yet. |
FFT |
Use FFT smooth or not. |
fft.sm.power |
the cut-off frequency of FFT smooth. |
A list containing total coverage for each 3' UTR.
chromosome/scaffold name
data matrix containing summarized View for transcript1
data matrix containing summarized View for transcript2
data matrix containing summarized View for transcriptN
Jianhong Ou