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XACT-seq

Python prequisites

  • Bio.SeqIO from Biopython
  • numpy
  • itertools

R prerequisites

  • RStudio
  • tidyverse
  • parallel
  • stringdist

Running the codes

  • All codes should be executed from the .Rmd files from within the codes folder.
  • Download all the sequencing datasets and place them within the 1-original folder

Run them in the following order.

  1. itc.process.crosslink.Rmd
  2. itc.process.template.Rmd
  3. itc.process.rnaseq.Rmd
  4. itc.combined.data.Rmd

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Code for processing XACT-seq data

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