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VariantTools (version 1.14.1)
Tools for Working with Genetic Variants
Description
Tools for detecting, filtering, calling, comparing and plotting variants.
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Version
Version
1.14.1
1.12.0
1.10.0
1.8.1
Version
1.14.1
License
Artistic-2.0
Maintainer
Michael Lawrence
Last Published
February 15th, 2017
Functions in VariantTools (1.14.1)
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variantGR2Vcf
Create a VCF for some variants
extractCoverageForPositions
Get Coverage at Positions
pileupVariants
Nucleotide pileup from alignments
tallyVariants
Tally the positions in a BAM file
callWildtype
Calling Wildtype
postFilterVariants
Post-filtering of Variants
callSampleSpecificVariants
Call Sample-Specific Variants
matchVariants
Match variants by position and allele
callGenotypes
Call Genotypes
callVariants
Call Variants
concordance
Variant Concordance
annotateWithControlDepth
Annotate Case with Control Depth
qaVariants
QA Filtering of Variants
FilterConstructors
Variant Filter Constructors
