Finds and classifies both annotated and novel splicing events
Incorporation of SGSeq in to the pipeline is still underway.
Requirements:
-
BAM files aligned with a splice-aware aligner with the XS flag switched on
-
A support file with these columns:
sample_name bam_file conditionX -
- multiple conditions and covariates (must have the name type*) are allowed
-
A submission file (see examples)
Currently set up for running on individual loci using the region string in config.yaml