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Baltica

Zenodo DOI
bioRxiv pre-print


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