Gapped-Kmer Support Vector Machine

Imports the 'gkmSVM' v2.0 functionalities into R <> It also uses the 'kernlab' library (separate R package by different authors) for various SVM algorithms. Users should note that the suggested packages 'rtracklayer', 'GenomicRanges', 'BSgenome', 'BiocGenerics', 'Biostrings', 'GenomeInfoDb', 'IRanges', and 'S4Vectors' are all BioConductor packages <>.


Reference manual

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0.81.0 by Mike Beer, a year ago

Browse source code at

Authors: Mahmoud Ghandi

Documentation:   PDF Manual  

GPL (>= 2) license

Imports kernlab, seqinr, utils, ROCR, Rcpp, grDevices, graphics, stats

Suggests rtracklayer, GenomicRanges, BSgenome, BSgenome.Hsapiens.UCSC.hg18.masked, BSgenome.Hsapiens.UCSC.hg19.masked, BiocGenerics, Biostrings, GenomeInfoDb, IRanges, S4Vectors

Linking to Rcpp

System requirements: C++11

See at CRAN