AddHumanGenomes: AddHumanGenomes

In elmerfer/GenomeDB: it will storage genomes and annotation files

AddHumanGenomes

Description

if any is missing, the GRCh38 assembly and the GENCODE release 38 annotation GTF is installed with version name "GRCh38+GENCODE". Else all the parameters are required

Usage

AddHumanGenomes()
AddHumanGenomes(urlFasta, urlGTF,version)

Arguments

urlFasta	url for the genome fasta file
urlGTF	the url of the annotation file
version	the name of the version identifying assembly+annotation sources

Examples

## Not run: 
#To install hg19
AddHumanGenomes(urlFasta = "ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_19/GRCh37.p13.genome.fa.gz",
urlGTF = "ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_19/gencode.v19.annotation.gtf.gz",
version = "GRCh37+GENECODE19")

## End(Not run)

elmerfer/GenomeDB documentation built on March 1, 2023, 1:11 a.m.