Output file of motif instances
Hi all,
Trying to output a file of motif instances in the following format:
Chr Start Stop Strand PwmScore
chr10 3944439 3944456 + 15.21570492
chr10 15627426 15627443 - 20.39377594
Anyone know a quick and easy way to do this? Thanks
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GouthamAtla
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rbronste
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You've got to be more specific and give us more details. For starters, what is your input dataset, what have you tried, and where exactly did you face a challenge?
So I am trying to generate a motif instances file to feed into msCENTIPEDE, for any particular motif: https://github.com/rajanil/msCentipede
So far I have tried using the R version of CENTIPEDE but found this python version to be easier to use and has some extra options helpful to me such as the ATAC-seq parameter. My input dataset will just be a few BAM files from my experiments.