Downloads

Software

AmiRNA/WMD3

AmiRNA/WMD3 is a Perl library and a web application for the automated design of artificial microRNAs.
The source code is available under the GNU General Public License (GPL)

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SHORE/SHOREmap

SHORE, for Short Read, is a mapping and analysis pipeline for short DNA sequences produced on a Illumina Genome Analyzer. It is designed for projects whose analysis strategy involves mapping of reads to a reference sequence. This reference sequence does not necessarily have to be from the same species, since weighted and gapped alignments allow for accuracy even in diverged regions.

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GenomeMapper

Short read mapping tool designed for accurate read alignments. GenomeMapper quickly aligns millions of reads either with ungapped or gapped alignments.

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MSQT

MSQT is a web based multiple SNP query tool.
The source code is available under the GNU General Public License (GPL) from the MSQT downloads site.

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Data

1001 Genomes

Assembled sequences and interpreted Illumina sequence data of Arabidopsis thaliana strains are available for download at the 1001 Genomes Data Center.

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Perlegen SNPs

249,052 high-quality SNPs discovered with Perlegen resequencing arrays are available from TAIR polymorphism search and TAIR SeqViewer. More than 1 million SNPs discovered at various false discovery rates are available at the TAIR FTP site, as are 13,470 predictions of highly polymorphic or deleted regions.

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