standage / mRNAmarkup

Evaluation and annotation of assembled transcripts

mRNAmarkup - a workflow for annotating transcript sequences

Installation

mRNAmarkup is implemented as a bash script which should work on any Linux or UNIX system. Please see INSTALL for requirements of other software and specific set-up instructions.

Quick Start

If you want to avoid any installation hussles, the following will do nicely, using our mRNAmarkup Singularity container that encapsulates all scripts, programs, and system packages.

git clone https://github.com/BrendelGroup/mRNAmarkup
cd mRNAmarkup/
singularity pull http://BrendelGroup.org/SingularityHub/mRNAmarkup.sif
./xsetup
cd db
singularity exec -e -B ${PWD}/.. ../mRNAmarkup.sif bash 0README
cd ..
cd data
singularity exec -e -B ${PWD}/.. ../mRNAmarkup.sif ./xtest
xdiff

Reference

manuscript to be submitted

Contact

Please direct all comments and suggestions to Volker Brendel at Indiana University.