Apr 112014
$ module load apps/annovar/529 apps/annovar/529/noarch | OK $ ls $ANNOVARBIN annotate_variation.pl coding_change.pl convert2annovar.pl retrieve_seq_from_fasta.pl summarize_annovar.pl table_annovar.pl variants_reduction.pl $ ls $ANNOVARDIR bin db example
$ module whatis apps/annovar/529/noarch apps/annovar/529 : Title: ANNOVAR Summary: Functional annotation of genetic variants from high-throughput sequencing data License: NONFREE - Free for non-profit use; see http://www.openbioinformatics.org/annovar/annovar_faq.html#license Group: Bioinformatics URL: http://www.openbioinformatics.org/annovar/ Name: annovar Version: 529 Module: apps/annovar/529/noarch Module path: /opt/gridware/etc/modules/apps/annovar/529/noarch Package path: /opt/gridware/pkg/apps/annovar/529/noarch Repository: git+http://download.alces-software.com/git/packager-base@c0cb517 Package: ext/annovar/@094f23e0 Last update: 2012-09-20 Builder: root@headnode1.lampredi.cluster.local Build date: 2014-04-11T13:12:32 Build parameters: tarball=/opt/gridware/ext/annovar-20130823.tar.gz Compiler: N/A For further information, execute: module help apps/annovar/529/noarch
$ module help apps/annovar/529/noarch
----------- Module Specific Help for 'apps/annovar/529/noarch' ---------------------------
======== ANNOVAR ========
Functional annotation of genetic variants from
high-throughput sequencing data
========================
This module sets up your environment for the use of the 'annovar'
application. This module sets up version '529' of the
application.
>> SYNOPSIS <1%) in the
1000 Genome Project, or identify subset of non-synonymous SNPs
with SIFT score>0.05, or many other annotations on specific
mutations.
* Other functionalities: Retrieve the nucleotide sequence in any
user-specific genomic positions in batch, identify a candidate
gene list for Mendelian diseases from exome data, identify a
list of SNPs from 1000 Genomes that are in strong LD with a GWAS
hit, and many other creative utilities.
>> LICENSING <> FURTHER INFORMATION <> GET STARTED <<
Please refer to the website for further details on usage of this
package.
$ module show apps/annovar/529/noarch
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/opt/gridware/etc/modules/apps/annovar/529/noarch:
module-whatis
Title: ANNOVAR
Summary: Functional annotation of genetic variants from high-throughput sequencing data
License: NONFREE - Free for non-profit use; see http://www.openbioinformatics.org/annovar/annovar_faq.html#license
Group: Bioinformatics
URL: http://www.openbioinformatics.org/annovar/
Name: annovar
Version: 529
Module: apps/annovar/529/noarch
Module path: /opt/gridware/etc/modules/apps/annovar/529/noarch
Package path: /opt/gridware/pkg/apps/annovar/529/noarch
Repository: git+http://download.alces-software.com/git/packager-base@c0cb517
Package: ext/annovar/@094f23e0
Last update: 2012-09-20
Builder: root@headnode1.lampredi.cluster.local
Build date: 2014-04-11T13:12:32
Build parameters: tarball=/opt/gridware/ext/annovar-20130823.tar.gz
Compiler: N/A
For further information, execute:
module help apps/annovar/529/noarch
module-conflict apps/annovar
setenv ANNOVARDIR /opt/gridware/pkg/apps/annovar/529/noarch
setenv ANNOVARBIN /opt/gridware/pkg/apps/annovar/529/noarch/bin
prepend-path PATH /opt/gridware/pkg/apps/annovar/529/noarch/bin
prepend-path MANPATH /opt/gridware/pkg/apps/annovar/529/noarch/share/man
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