Biowulf High Performance Computing at the NIH
Scientific Databases

Human Genome hg18

Build 36, hg18 (Apr 2006) from the International Human Genome Consortium
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Description Format Location on HPC systems Last Updated
Build 36, hg18 (Apr 2006) from the International Human Genome Consortium.dict
Sequence dictionary file produced by Picard CreateSequenceDictionary
/fdb/indexes/hg18/hg18.fa.dict 31 Jan 2014
(Updated one-time)
Source: Built on Helix from /fdb/indexes/hg18/hg18.fa
Build 36, hg18 (Apr 2006) from the International Human Genome Consortium.fai
Fasta index file produced by samtools faidx
/fdb/indexes/hg18/hg18.fa.fai 31 Jan 2014
(Updated one-time)
Source: Built on Helix from /fdb/indexes/hg18/hg18.fa
Build 36, hg18 (Apr 2006) from the International Human Genome Consortium Bfast indexes
For use by the Bfast program for fast and accurate mapping of short reads to reference sequences
/fdb/bfast 31 Oct 2011
(Updated one-time)
Source: built using bfast index builder from /fdb/genome/hg18/chr_all.fa
Build 36, hg18 (Apr 2006) from the International Human Genome Consortium Blast
formatted for the NCBI Blast program. For use via command-line Blast on HPC systems.
/fdb/genome/hg18 31 Jan 2014
(Updated one-time)
Source: genome-ftp.cse.ucsc.edu
Build 36, hg18 (Apr 2006) from the International Human Genome Consortium defuse data
Data used by the deFuse program for gene fusion discovery using RNA-Seq data
/fdb/defuse/hg18 17 Feb 2012
(Updated one-time)
Source: hgdownload.cse.ucsc.edu
Build 36, hg18 (Apr 2006) from the International Human Genome ConsortiumFasta
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/genome/hg18/ 31 Jan 2014
(Updated one-time)
Source: genome-ftp.cse.ucsc.edu
Build 36, hg18 (Apr 2006) from the International Human Genome Consortium GATK resource bundle
Standard data set for working with GATK
/fdb/GATK_resource_bundle/hg18 10 Dec 2013
(Updated After new release; currently at Version 2.8)
Source: gsapubftp-anonymous@ftp.broadinstitute.org
Build 36, hg18 (Apr 2006) from the International Human Genome Consortium Igenomes
Illumina's Igenomes are a collection of reference sequences and annotation files for commonly analyzed organisms. More info at Illumina
/fdb/igenomes/Homo_Sapiens 16 May 2016
(Updated one-time)
Source: support.illumina.com
Build 36, hg18 (Apr 2006) from the International Human Genome ConsortiumMySQL
Accessible through the HPC mirror of the UCSC Genome Browser. Also available for direct MySQL queries from the Biowulf cluster nodes.
NIH mirror of UCSC Genome Browser 17 Dec 2018
(Updated weekly)
Source: genome.ucsc.edu
Build 36, hg18 (Apr 2006) from the International Human Genome Consortium Novoalign indexes
Indexes for the Novoalign aligner for single-ended and paired-end reads from the Illumina Genome Analyser
/fdb/novoalign/chr_all_hg18.nix 27 Sep 2010
(Updated one-time)
Source: built using novoindex from/fdb/genome/hg18/chr_all.fa
Build 36, hg18 (Apr 2006) from the International Human Genome Consortium plinkseq data
Data used by plinkseq, a library for working with human genetic variation data.
/fdb/plinkseq/hg18 18 Nov 2014
(Updated one-time)
Source:

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