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A software tool that determines the linkage disequilibrium (LD) region around a significant SNP from a GWAS. CandiSNPer provides a list with functional annotation and LD values for the SNPs found in the LD region. This list contains not only the SNPs for which genotyping data are available, but all SNPs with rs-IDs, thus increasing the likelihood to include the causal variant. Furthermore, plots showing the LD values are generated. CandiSNPer facilitates the preselection of candidate SNPs for causal variants.

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CandiSNPer classification

  • Animals
    • Homo sapiens

CandiSNPer specifications

Web user interface
Programming languages:
Perl, R
Restrictions to use:
Computer skills:

CandiSNPer support


  • Armin O. Schmitt <>


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Department for Crop and Animal Sciences, Humboldt-Universität zu Berlin, Berlin, Germany

Funding source(s)

German Federal Ministry of Education and Research (NGFNPlus 01GS0829)

Link to literature

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