Baltica

Baltica: integrated splice junction usage analysis

Features

Snakemake workflows for DJU: JunctionSeq, Majiq, rMATS, and Leafcutter
Snakemake workflow for de novo transcriptome annotation with Stringtie
Process, integrate and annotate the results from the methods
Summarise AS class of differently spliced junctions
DJU method benchmarks
Report on the integrative analysis

Instructions for using Baltica

We tested the instruction below in a computer cluster running Debian Linux distribution and using the Slurm job scheduler. Baltica uses Snakemake and Singularity, which support many different high-performance systems, for instructions on how to use it on different systems, please see
Setting up Baltica: long edition or contact us,

Documentation

https://dieterich-lab.github.io/Baltica.

Setting up Baltica

Instalation instructions

Contribution

Feedback and contribution are welcome. Would you mind submitting via the GitHub issue tracker
Please provide the following information while submitting issue reports:

Software and operation system versions
Command-line call
If possible, also provide sample data so we can try to reproduce the error