Retroviral Integration Pattern Analysis Tool (RIPAT)


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Documentation for package ‘RIPAT’ version 1.14.0

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annoByCpG Annotate integration sites by CpG sites.
annoByGene Annotate integration sites by genes and TSSs.
annoByRepeat Annotate integration sites by repeats and microsatellites.
annoByVar Annotate integration sites by clinical variants.
blast_gene Integration site annotation by gene data
blast_obj Retroviral vector integration site object
cpg_exam_db Data file for annoByCpG vignette
drawingKaryo Draw the karyogram plot.
gene_exam_db Data file for annoByGene vignette
makeData Make data files for RIPAT.
makeDocument Make the result object and document.
makeInputObj Make the retroviral vector integration site object.
makeInputObj2 Make the retroviral vector integration site object.
micro_exam_db Data file for annoByRepeat vignette
repeat_exam_db Data file for annoByRepeat vignette
tss_exam_db Data file for annoByGene vignette
var_exam_db Data file for annoByVar vignette