This function provides effective length (sum of lengths of exons) of the genes for calculating TPM values. Calculates the union of all annotated exons across every transcript associated with a gene.
Usage
getEffLen(gtf = NULL, format = "gff3")
Arguments
- gtf
Provide path or URL to GTF file.
- format
Format of the feature file i.e. "gtf" or "gff3". Default "gff3".
Value
df numeric. This function returns a data frame with 2 columns: "GeneID", "Length".
Examples
if (FALSE) { # \dontrun{
getEffLen("/data/PlasmoDB-67_Pfalciparum3D7.gtf")
} # }
