transcriptWindowPer {ORFik} | R Documentation |
Make 100 bases size meta window for one library in experiment
transcriptWindowPer( leaders, cds, trailers, df, outdir = NULL, scores = c("sum", "zscore"), reads, returnCoverage = FALSE, windowSize = 100, BPPARAM = bpparam() )
leaders |
a |
cds |
a |
trailers |
a |
df |
an ORFik |
outdir |
directory to save to (default: NULL, no saving) |
scores |
scoring function (default: c("sum", "zscore")), see ?coverageScorings for possible scores. |
reads |
a GRanges / GAligment object of reads, can also be a list of those. |
returnCoverage |
return data.table with coverage (default: FALSE) |
windowSize |
size of binned windows, default: 100 |
BPPARAM |
how many cores/threads to use? default: bpparam() |
Gives you binned meta coverage plots, either saved seperatly or all in one.
NULL, or ggplot object if returnPlot is TRUE
Other experiment plots:
transcriptWindow1()
,
transcriptWindow()