SnpEff specifications

Unique identifier:
OMICS_00186
Restrictions to use:
None
Input format:
VCF
Computer skills:
Basic
Maintained:
Yes
Interface:
Web user interface
Input data:
Predicted variants (SNPs, insertions, deletions, MNPs)
Output data:
SnpEff analyzes the input variants. It annotates the variants and calculates the effects they produce on known genes (e.g. amino acid changes).
Stability:
Stable

Subtools

  • SnpSift
  • ClinEff
  • Animals
    • Homo sapiens

SnpEff specifications

Unique identifier:
OMICS_00186
Interface:
Command line interface
Input data:
Predicted variants (SNPs, insertions, deletions, MNPs)
Output data:
SnpEff analyzes the input variants. It annotates the variants and calculates the effects they produce on known genes (e.g. amino acid changes).
Programming languages:
Java
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes
Software type:
Package/Module
Restrictions to use:
None
Input format:
VCF
Operating system:
Unix/Linux
License:
GNU Lesser General Public License version 3.0
Version:
4.3
Source code URL:
http://snpeff.sourceforge.net/download.html#source

Subtools

  • SnpSift
  • ClinEff
  • Animals
    • Homo sapiens

versioning

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SnpEff distribution

download

SnpEff support

Documentation

Maintainer

  • Douglas M. Ruden <>
  • Douglas M. Ruden <>

Additional information

http://www.dnaminer.com/clineff.html

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Credits

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Publications

Institution(s)

Supported by a Michigan Core Technology grant from the State of Michigan's 21st Century Fund Program to the Wayne State University Applied Genomics Technology Center, the Environmental Health Sciences Center in Molecular and Cellular Toxicology with Human Applications Grant P30 ES06639 at Wayne State University, NIH R01 grants (ES012933) and DK071073.

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Arup Ghosh

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Really easy to use variant annotation tools compatible with multiple variant calling software outputs. This tool gives the freedom to build custom annotation files and direct import from NCBI GeneBank.

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