Release 3.1.0

Release to add commandline keys to config as well as bugfixes to gtf reading.

Release 3.0.0

functionality and simplification update
fix of several bugs, like entries in allhits but not finalhits.
There are new functionalities:

• bed/gtf and single query annotation specification can be given via command line
• show_attributes outside of query specification
• additional name information per query
• summary is always produced automatically

Release 2.0.3

This is a bugfix release. It fixes a bug in case the queries feature key is empty or contains multiple entries.

Initial PyPI release (1.2.1)

We had to rearrange some files to meet the requirements of a PyPI package.
UROPA is now installable via

• conda install -c bioconda uropa,
• pip install uropa and
• docker pull quay.io/biocontainers/uropa.

Release 1.2.0

We included functionality for an UpSetR plot in the summary.R, mostly in order to be more independent from the non-standard requirement Vennerable.

Release 1.1.2

We updated some auxillary scripts to enable automated checks that require a proper exit status of those scripts if invoked with a -h/--help flag.

Paper release

This is the version as described in the accompanying paper

Maria Kondili, Annika Fust, Jens Preussner, Carsten Kuenne, Thomas Braun & Mario Looso. UROPA: a tool for Universal RObust Peak Annotation. Scientific Reports 7 (2017), doi: 10.1038/s41598-017-02464-y