Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden
Python C++ Perl
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Indels
SNPs
SV
files
programs
README.md

README.md

Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden

Long Q, Rabanal FA, Meng D, Huber CD, Farlow A, Platzer A, Zhang Q, Vilhjálmsson BJ, Korte A, Nizhynska V, Voronin V, Korte P, Sedman L, Mandáková T, Lysak MA, Seren Ü, Hellmann I, Nordborg M (2013) Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden. Nat Genet 45: 884–890.

Genotype files

In total we identified around 4.5M SNPs, 576k short indels, 23k transposable elements, 7.7k CNVs, as well as 3.8k other structural variants (larger than 200 bp). The following files are available:

Programs

LAE-finder

Denovo-SV

MACH related scripts

These are the scripts that format genotypes files and submit MACH jobs to our cluster. Please note that these scripts are not intended to be easily usable elsewhere.

Other files