writeBambuOutput: Write bambu results to GTF and transcript/gene-count files

In bambu: Reference-guided isoform reconstruction and quantification for long read RNA-Seq data

Description

Outputs a GTF file, transcript-count file, and gene-count file from bambu

Usage

writeBambuOutput(se, path, prefix = "")

Arguments

se	a SummarizedExperiment object from bambu.
path	the destination of the output files (gtf, transcript counts, and gene counts)
prefix	the prefix of the output files

Value

The function will generate three files, a .gtf file for the annotations, two .txt files for transcript and gene counts respectively.

Examples

se <- readRDS(system.file("extdata",
    "seOutput_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds",
    package = "bambu"
))
path <- tempdir()
writeBambuOutput(se, path)

bambu documentation built on Nov. 12, 2020, 2:01 a.m.