Utility to make a UCSC trackhub easily

This is a small utility to build a UCSC trackhub to visualise your data in the genome browser.

Install

The only way to use this tool (at least for the moment) is to clone the repository and run the source code:

git clone git@github.com:LehmannN/makeUcscTrackhub.git
cd makeUcscTrackhub/src/

Run

Here are some examples of how to run this code. Your data to be include in the trackhub (BAM, GTF...) needs to be separated into 2 folders, one with files to convert (eg BAM to BigWig or GTF to BigBed) and the other one with files to keep without converting (BAM).

./main.sh -i ../data/convert -j ../data/noconvert -p 20 -n galGal6