# appreci8R: an R/Bioconductor package for filtering SNVs and short indels with high sensitivity and high PPV

## Documentation for package ‘appreci8R’ version 1.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

appreci8R-package | appreci8R: an R/Bioconductor package for filtering SNVs and short indels with high sensitivity and high PPV
annotate | Annotate and filter calls
appreci8 | appreci8R: an R/Bioconductor package for filtering SNVs and short indels with high sensitivity and high PPV
appreci8R | appreci8R: an R/Bioconductor package for filtering SNVs and short indels with high sensitivity and high PPV
appreci8Rshiny | A user interface to perform the whole appreci8-analysis
combineOutput | Combine output of different variant calling tools
determineCharacteristics | Determine characteristics of the calls
evaluateCovAndBQ | Evaluate coverage and base quality
filterTarget | Excludes all off-target calls from further analysis.
finalFiltration | Perform final filtration according to the appreci8-algorithm
normalize | Normalize calls
Variant Filtration | appreci8R: an R/Bioconductor package for filtering SNVs and short indels with high sensitivity and high PPV