Question: Feature Update: Expanded Reference Genomes For Ngs Tools
0
Jennifer Hillman Jackson ♦ 25k wrote:
Feature Update: Expanded Reference Genomes for NGS Tools
Expanded genome data is now available on Galaxy's main server
http://usegalaxy.org.
The expanded genome data are organized into the following categories:
Full = All chromosomes (or scaffolds/contigs) released as part of the
full build from the data source. Many will also include the latest
Mitochondrial chromosome, if available. Full is the default genome
build
type for all reference genomes and what was previously available.
Canonical = All chromosomes released that represent the core
chromosomes
(including mitochondrial) for that species and build. Canonical will
not
include chromosomes with names that include: chrUn, chrN_random,
chrN_hap_XX (haplotype), and similar.
Coming soon will also be the reference genome variants Male and
Female.
Many genomes will default to Male (identical to Canonical). Female
will
be the Canonical minus a chrY chromosome.
The NGS Tools with expanded genome data available: Bowtie and BWA.
Please note that previously used/saved settings will default to
"Full".
Other NGS Tools are planned to have expanded reference genome data
available in the future as appropriate.
Reference genomes part of the expanded dataset include:
galGal3
hg18
hg19
mm8
mm9
panTro2
rn4
taeGut1
tetNig1
tetNig2
Thanks for using Galaxy!
Galaxy team
November 16, 2010