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  3. Pool-seq
  4. SNP detection
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A complete data analysis framework for overlapping pool designs, with novelties in all three major steps: variant pool and variant locus identification, variant allele frequency estimation and variant sample decoding. VIP is very flexible and can be combined with any pool design approaches and sequence mapping/alignment tools.

Software type:
Framework
Interface:
Command line interface
Restrictions to use:
None
Operating system:
Unix/Linux
Computer skills:
Advanced
Version:
VIP version 1.0
Stability:
Stable
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Maintainer

  • Jing Li <jingli at cwru.edu>

Institution(s)

Department of Electrical Engineering and Computer Science, Case Western Reserve University, Cleveland, OH 44106, USA

Funding source(s)

This research is supported by National Institutes of Health/National Library of Medicine grant LM008991.

  • (Wang et al., 2013) Rare variant discovery and calling by sequencing pooled samples with overlaps. Bioinformatics.
    PMID: 23104896

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