Find Broken Motifs for a combination of SNPs

Simon-Coetzee / motifBreakR

A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.

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Find Broken Motifs for a combination of SNPs #13

Closed YichaoOU closed 3 months ago

YichaoOU commented 5 years ago

Hi,

Suppose that you have two SNPs that are adjacent, currently, motifBreakR will analyze these two SNPs separately, however, I'm looking for a motif that could be broken by the two SNPs together. Is it possible for motifBreakR to consider a combination of SNPs?

Thanks, Yichao

Simon-Coetzee commented 5 years ago

This work is currently underway, I'll post here when the code is rolled out

dennishazelett commented 3 months ago

This can be done with custom variants, e.g.:

chr1  12345  12349  chr1:12345:12349:ACTTG:AGTCG