view tool-data/gene_sets.loc.sample @ 2:b5c93611d2c5 draft

planemo upload for repository https://github.com/ErasmusMC-Bioinformatics/featurecounts_galaxy_wrapper commit b05640a41e2106782ac7f88f858b0a256918fa6f

# This is a sample file distributed with Galaxy that enables tools
# to use gene/exon annotations in the GFF/GTF format. You will need
# to add all the gene set annotations in this configuration file.
# Because of this file, galaxy tools are able to access gene annotations
# provided as GFF / GTF files by selecting on:
# - Priorty (defined by the order in the file)
# - Provider
# - dbkey (reference genome id)
# 
# The gene_sets.loc file syntax is:
# <name/UID> <dbkey> <path> <provider> <URL/reference*>
#  *optional
# 
# Please ensure maximally one TAB (\t) between two columns!
# ---------------------------------------------------------
# 
# In case you have TWO or MORE providers PER dbkey, the one mentioned
# first in the file, should have the "default" priority.
#



# [UCSC - UCSC Genes: knownGene]

#hg19.UCSC knownGene (mm/'yy)	hg19	/depot/data2/galaxy/hg19/gene_sets/Homo_sapiens.GRCh37.74.gtf	ucsc	http://genome.ucsc.edu/
#hg18.UCSC knownGene (mm/'yy)	hg18	/depot/data2/galaxy/hg18/gene_sets/Homo_sapiens.NCBI36.54.gtf	ucsc	http://genome.ucsc.edu/



# [RefSeq Genes: RefGene]
# link: ftp://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/RefSeqGene/



# [ Ensembl]
# link: http://www.ensembl.org/info/data/ftp/index.html

#Homo_sapiens.GRCh37.74	hg19	/depot/data2/galaxy/hg19/gene_sets/Homo_sapiens.GRCh37.74.gtf	ensembl	ftp://ftp.ensembl.org/pub/release-74/gtf/homo_sapiens/Homo_sapiens.GRCh37.74.gtf.gz
#Homo_sapiens.NCBI36.54	hg18	/depot/data2/galaxy/hg18/gene_sets/Homo_sapiens.NCBI36.54.gtf	ensembl	ftp://ftp.ensembl.org/pub/release-54/gtf/homo_sapiens/Homo_sapiens.NCBI36.54.gtf.gz