plot_peakGeneAlias_summary {FindIT2} | R Documentation |
plot_peakGeneAlias_summary
plot_peakGeneAlias_summary( mmAnno, mmAnno_corFilter = NULL, output_type = c("gene_id", "feature_id"), fillColor = "#ca6b67" )
mmAnno |
the annotated GRange object from mm_geneScan or mm_nearestGene |
mmAnno_corFilter |
the filter mmAnno object according to p-value or cor, defalut is NULL |
output_type |
one of 'gene_id' or 'feature_id' |
fillColor |
the bar plot color |
a ggplot object
if (require(TxDb.Athaliana.BioMart.plantsmart28)) { Txdb <- TxDb.Athaliana.BioMart.plantsmart28 seqlevels(Txdb) <- paste0("Chr", c(1:5, "M", "C")) peak_path <- system.file("extdata", "ChIP.bed.gz", package = "FindIT2") peak_GR <- loadPeakFile(peak_path) peakAnno <- mm_nearestGene(peak_GR, Txdb) plot_peakGeneAlias_summary(peakAnno) }