detectionCallAnnotation: Generate Annotation Data Used for Calculating Detection P...

In Rsubread: Mapping, quantification and variant analysis of sequencing data

Description

This is for internal use only. This function generates the annotation files for calculating p values in the detectionCall function.

Usage

detectionCallAnnotation(

    species = "hg",
    binsize = 2000)

Arguments

species	a character string specifying the species to analyase
binsize	an integer value specifying the bin-size of integenic region

Details

This is an internal function and should not be called by users directly.

It takes as input the annotation files produced by processExons function, calculates GC percentages for each exon of genes and also for intergenic regions and add GC info into the annotations. The new annotation data are then saved to files which can be used by detectionCall function for calling absolutely expressed genes.

Value

Two annotation files, which contain GC content for exons of genes and for intergenic regions respectively, are written to the current working directory. This function returns a NULL object.

Author(s)

Zhiyin Dai and Wei Shi

Rsubread documentation built on March 17, 2021, 6:01 p.m.