A Package for Predicting the Disruptiveness of Single Nucleotide Polymorphisms on Transcription Factor Binding Sites

Documentation for package ‘motifbreakR’ version 2.27.4

calculatePvalue	Calculate the significance of the matches for the reference and alternate alleles for their PWM
encodemotif	MotifDb object containing motif information from the known and discovered motifs for the ENCODE TF ChIP-seq datasets
example.results	Example Results from motifbreakR
exportMBbed	Export motifbreakR variants to bed file
exportMBtable	Export motifbreakR results to csv or tsv
factorbook	MotifDb object containing motif information from around the genomic regions bound by 119 human transcription factors in Factorbook
findSupportingRemapPeaks	Find Corresponding TF Binding From The ReMap2022 Project
hocomoco	MotifDb object containing motif information from Homo Sapiens Comprehensive Model Collection (HOCOMOCO) of transcription factor (TF) binding models
homer	MotifDb object containing motif information from motif databases included in HOMER
motifbreakR	Predict The Disruptiveness Of Genetic Variants On Transcription Factor Binding Sites
motifbreakR_motif	MotifDb object containing motif information from the motif databases of HOCOMOCO, Homer, FactorBook and ENCODE
plotMB	Plot a genomic region surrounding a genomic variant, and potentially disrupted motifs
shiny_motifbreakR	Run Shiny version of the motifbreakR package
snps.from.file	Import variants from a BED file or VCF file for use in motifbreakR
snps.from.rsid	Import SNPs from rsid for use in motifbreakR
variants.from.file	Import variants from a BED file or VCF file for use in motifbreakR