This is a compilation of snakemake files to use on the SGE queue of the VSC cluster. The snakemake are currently covering
- Multiple Genome Alignment
- DeNovo Genome Assembly with Newbler
- Mira Genome Assembly with MIRA
- Genome Annotation (still incomplete)
- chimericRNA extraction from STAR read mapping
We still need pipelines for
- Functional Genome Annotation
- Differential expression
- SNP annotation