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SeqEM

Performs genotype calling using next-generation sequencing (NGS) data from multiple unrelated individuals. SeqEM is an adaptive approach that does not require prior estimates of genotype frequencies or nucleotide read error but rather is driven by the data. The software leverages information from NGS data for multiple individuals by using the Expectation-Maximization (EM) algorithm to numerically maximize the observed data likelihood with respect to genotype frequencies and the nucleotide-read error rate.

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SeqEM versioning

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SeqEM classification

SeqEM specifications

Software type:
Package/Module
Restrictions to use:
None
Computer skills:
Advanced
Stability:
Stable
Interface:
Command line interface
Operating system:
Unix/Linux
Version:
1.0
Maintained:
Yes

SeqEM support

Maintainers

  • Eden Martin <>
  • SeqEM Team <>

Credits

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Publications

Institution(s)

John P Hussman Institute for Human Genomics and the Dr John T Macdonald Foundation Department of Human Genetics, Miller School of Medicine, University of Miami, Miami, FL, USA

Funding source(s)

Supported by National Human Genome Research Institute (RC2HG005605), National Institute for Neurology and Stroke (U54NS065712 and R01NS026630).

Link to literature

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