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snpeff
Version:
4.3.1t
Identifier:
TL_0dbbaf.17
Tool
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Overview
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Description
Variant annotation and effect prediction tool. It annotates and predicts the effects of variants on genes and proteins (such as amino acid changes).
Subtools
snpeff download
Download a snpeff index for a species
snpeff annotate
Annotate a VCF
Links
http://snpeff.sourceforge.net/
http://www.mybiosoftware.com/snpeff-2-0-5d-snpsift-1-3-4-variant-annotation-effect-prediction-tool.html
http://snpeff.sourceforge.net/download.html
https://galaxy.pasteur.fr/tool_runner?tool_id=toolshed.pasteur.fr/repos/fmareuil/snpeff2/snpEff2/0.3
https://galaxy.pasteur.fr/tool_runner?tool_id=toolshed.pasteur.fr/repos/screno/snpeff3/snpEff3/3.5
https://galaxy.pasteur.fr/tool_runner?tool_id=toolshed.pasteur.fr/repos/fmareuil/snpeff4/snpEff4/4.1
http://snpeff.sourceforge.net/SnpEff.html
http://snpeff.sourceforge.net/SnpEff_manual.html
http://snpeff.sourceforge.net/about.html#help
Tags
DNA polymorphism
Genetic variation
Nucleic acid sites, features and motifs
SNP detection
Biostars
Is SNPeff still the standard for variant effect prediction?
Differences between SNP annotation tools
Annotation with snpEFF
VCF to Uniprot Mutation
SNP annotation with R and SnpEff
number of functions is more than namber of variants in snpEff's output
more than one annotation at a locus in SnpEff output?
How to select predefine transcript when annotate VCF
How to get input for provean from vcf files annotated by snpeff?
Identify or update refseq transcript version on snpeff
Human mitochondrial DNA annotation in SnpEff
What parameters to set in SNPEff to improve annotation results from the Pilon VCF input to SNPEff?
snpEff database error
snpEff database to annotate b37 GATK output
Freebayes and snpeff give different number of SNPs
Effect of Non-Cannonical splice site on impact of variation
Extract each annotation in 'info' column in snpEff output
Issue converting VCF to MAF using snpEff annotations
Format VCF for dbSNP upload
SNPeff result interpretation