Decoil supports now VCF file formats originating from the following SV callers:
sniffles (tested sniffles 1.0.7 and 1.0.12)
sniffles2 (tested sniffles 2.4)
cuteSV (tested version cuteSV 2.1.1)
nanomonsv (tested version nanomonsv 0.7.2)
When running decoil reconstruct you can specify the --sv-caller as ['sniffles1', 'sniffles2', 'cutesv', 'nanomonsv'], depending on which SV caller you used to call the structural variants.
Note: The decoil-pipeline supports only --sv-caller sniffles1.
Add feature:
Decoil supports now VCF file formats originating from the following SV callers:
When running
decoil reconstructyou can specify the--sv-calleras ['sniffles1', 'sniffles2', 'cutesv', 'nanomonsv'], depending on which SV caller you used to call the structural variants.Note: The
decoil-pipelinesupports only--sv-caller sniffles1.