1001 Genomes
A Catalog of Arabidopsis thaliana Genetic Variation
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Related publication

Schneeberger K, Ossowski S et al.
SHOREmap: simultaneous mapping and mutation identification by deep sequencing
Nature Methods 6, 550 - 551 (2009) | doi:10.1038/nmeth0809-550.

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SHOREmap

Speed up your mutant mapping with Next Generation Sequencing

To dramatically speed up identification of causative point mutations and small deletions from pooled and sequenced mapping populations, we provide the software package SHOREmap, an extension of the short read analysis pipeline SHORE. SHOREmap supports genome-wide genotyping and candidate-gene sequencing in a single step through analysis of deep sequencing data from a large pool of recombinants. SHOREmap requires aligned sequence data from a pooled mapping population. Based on the read count at marker positioning distinguishing the parents it regonizes regions with skews in the allele distribution. Annotating the changes within this interval rapidly leads to causal changes.


Download SHOREmap

Release Date Download Manual
Release 2.1
 
2013-08-01 SHOREmap 2.1 Manual
Release 2.0
 
2011-05-18 SHOREmap_release_2.0.tar.gz Manual
Release 1.2 2011-01-19 SHOREmap_release_1.2.tar.gz
In combination with
SHORE version 0.4.1. or higher
Manual (r1.1)
Release 1.1 2009-08-11 SHOREmap_release_1.1.tar.gz
In combination with
SHORE version 0.4.1. or higher
Manual
Release 1.0 2009-03 SHOREmap_release_1.0.tar.gz
In combination with
SHORE version 0.3.1 or lower
Manual


Source Code

Checkout the latest version from Google Code:
svn checkout http://shoremap.googlecode.com/svn/trunk/ shoremap-read-only

Projects

Project description Read data Publication
Resequencing data of a pool of 500 F2 recombinants of a cross between A. thaliana Col-0 and Ler-1 selected for slow growth and light leaves. Schneeberger.2009.single_end.gz Schneeberger et al, 2009, Nature Methods
Resequencing data of a pool of 200 F2 recombinants of a cross between A. thaliana Col-0 and Ler-1 selected for late flowering. Galvao.2012.reads1.fq.gz
Galvao.2012.reads2.fq.gz
Galvao et al, 2012, Plant Journal
Resequencing data of a pool of 270 F2 isogenic recombinants within the background of A. thaliana Col-0 selected for suppression of lhp1 mutant phenotype. Hartwig.2012.suppressor.reads1.fq.gz Hartwig.2012.suppressor.reads2.fq.gz Hartwig.2012.background.reads1.fq.gz Hartwig.2012.background.reads2.fq.gz Hartwig et al, 2012, under review


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