DeepBindTK is a wrapper around DeepBind aimed to predict and plot TF binding affinity differences between individuals. I wrote this some time ago, so apologies if you find the coding practices disgusting.
- Perl
- R (>= 3.3). In addition Rscript must be accessible
- BEDtools
- SAMtools
- GNU core utils: wget, awk, sort, cat, grep, head, tail, sed, cut, paste, uniq, wc and mv. For macOS users: install Homebrew (https://brew.sh/) and the latest XCode.
- Parallel::ForkManager
- Sort::Key::Natural
- Statistics::Descriptive
- ggplot2