Files to reproduce Foley and Sidow, "Transcription-factor occupancy at HOT regions quantitatively predicts RNA polymerase recruitment in five human cell lines"
- analysis/: scripts and processed data for core analysis; see master_script.sh, which automates all commands in the pipeline
- data/: pre-processed data, i.e. alignments and related data, required only for running UniPeak and annotating the output matrix
- figure/: scripts, and their output, for generating figures in the paper
- hg19/: standard data for hg19 reference genome, required only for annotating UniPeak output matrix
- script/: general-purpose scripts called by the pipeline
- UniPeak_1.0/: complete copy of UniPeak software and accessories, version 1.0, including source code and binaries compiled on
Linux 3.2.0-30-generic #48-Ubuntu SMP Fri Aug 24 16:52:48 UTC 2012 x86_64
and statically linked to Boost libraries