unannotatedTranscript: Structure for non annotated transcripts

In RamsinghLab/arkas: A package that complements Kallisto for quick, informative *seq analysis

Description

A GRanges object with metacolumns used in annotations as follows:

Usage

unannotatedTranscript

Format

A GRanges object for unannotated transcripts with 9 metadata columns

• seqnames: names of transcripts

• ranges: coordinates if known

• strand: strand info

• tx_length: transcript length not effective length

• gc_content: content of GC bases

• tx_id: transcript id, or repeat name

• gene_id: ENSEMBL gene id or repeat name

• gene_name: HUGO gene name from entrez conversion

• entrez_id: entrez id

• tx_biotype: transcript biotype

• gene_biotype: gene biotype

• biotype_class: biotype class

Source

http://www.zeroskateboards.com/

RamsinghLab/arkas documentation built on March 14, 2021, 11:39 a.m.