Evaluating SNV-Induced Disruption of G-Quadruplex Structures


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Documentation for package ‘G4SNVHunter’ version 1.1.5

Help Pages

checkSNV Check the validity of SNVs
exportG4 Export Predicted G4s to a File
exportMutG4 Export G4s and Associated Variant Information to File
filterSNVImpact Filter SNV Impact GRanges Object Based on User-Defined Thresholds
filterVarImpact Filter Variant Impact G4 Object Based on User-Defined Thresholds
G4HunterDetect Detect G4 Sequences Using the G4Hunter Algorithm
G4HunterScore Calculate the G4Hunter Score for a Given Sequence
G4VarImpact Evaluate the Impact of Variants (SNVs, Indels, MNVs) on G4 Sequences
loadSequence Load Genome Sequences
loadVariant Load Small Variant Data from VCF or MAF Files
plotG4Info Plot Basic Statistics of G4s Detected by the G4HunterDetect Function
plotImpactedG4 Sequence Logo of the G4 Sequence and Its Mutant Counterpart
plotImpactSeq Visualize the variants in G4 sequence
plotSNVImpact Plot the Impact of SNVs on G4Hunter Scores
plotVarImpact Plot the Impact of Variants on G4 Formation
snp_gr Single Nucleotide Polymorphisms GRanges Object
SNVImpactG4 Evaluate the Impact of SNVs on G4 Sequences
snv_gr Single Nucleotide Variant GRanges Object