EC-SSV (Ensemble Calling Somatic SV for long reads)

Description

EC-SSV is a pipeline for detecting somatic structural variations from paired (tumor and matched normal) cancer genome sequence data based on snakemake workflow management system.

Requirements

1. snakemake v7.2.1
2. minimap2 v2.17-r941
3. ngmlr v0.2.7
4. Sniffles v1.0.12
5. cuteSV v1.0.11
6. Nanomonsv v0.4.0
7. Fmlrc2 v1.0.0
8. Jasmine v1.1.5
9. IGV v2.12.2
10. Guppy v4.0.15
11. Nanopolish v0.13.2
12. PEPPER v0.6