VAT/download
From GersteinInfo
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# [http://www.gnu.org/software/gsl/ GSL] - GNU Scientific Library | # [http://www.gnu.org/software/gsl/ GSL] - GNU Scientific Library | ||
| - | # [http://hgwdev.cse.ucsc.edu/~kent/exe/linux/blatSuite.34.zip BlatSuite] - BLAT and a collection of utility programs. Note these executables | + | # [http://hgwdev.cse.ucsc.edu/~kent/exe/linux/blatSuite.34.zip BlatSuite] - BLAT and a collection of utility programs. Note: these executables must be part of the PATH. |
# [http://www.libgd.org/Main_Page GD library] - The GD library is used to create an image for each gene model and its associated variants. | # [http://www.libgd.org/Main_Page GD library] - The GD library is used to create an image for each gene model and its associated variants. | ||
| - | # [http://samtools.sourceforge.net/tabix.shtml Tabix] - Tabix is generic tool that indexes position-sorted files in tab-delimited formats to facilitate fast retrieval ([http://sourceforge.net/projects/samtools/files/tabix/ download]). | + | # [http://samtools.sourceforge.net/tabix.shtml Tabix] - Tabix is generic tool that indexes position-sorted files in tab-delimited formats to facilitate fast retrieval ([http://sourceforge.net/projects/samtools/files/tabix/ download]). Note: these executables must be part of the PATH |
# [http://vcftools.sourceforge.net/index.html VCF tools] - VCF tools consists of a suite of useful modules to manipulate VCF files. | # [http://vcftools.sourceforge.net/index.html VCF tools] - VCF tools consists of a suite of useful modules to manipulate VCF files. | ||
Revision as of 16:12, 8 March 2011
Code
Required Software - External
- GSL - GNU Scientific Library
- BlatSuite - BLAT and a collection of utility programs. Note: these executables must be part of the PATH.
- GD library - The GD library is used to create an image for each gene model and its associated variants.
- Tabix - Tabix is generic tool that indexes position-sorted files in tab-delimited formats to facilitate fast retrieval (download). Note: these executables must be part of the PATH
- VCF tools - VCF tools consists of a suite of useful modules to manipulate VCF files.
Download
VAT suite consists of two components:
Source code
A TAR ball containing the source code can be downloaded here:
- VAT-0.5.tar.gz - Initial upload
Executables
Statically built binaries for UNIX can be found here:
- VAT-0.5-UNIX.tar.gz - 64bit version
Important Note ============== THIS PACKAGE (RSEQtools including BIOS and MRF) IS PROVIDED "AS IS" AND WITHOUT ANY EXPRESSED OR IMPLIED WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE.
License information
The software package is released under the Creative Commons license (Attribution-NonCommerical).
For more details please refer to the Permissions Page on the Gerstein Lab webpage.
