What is the principle of merging records from multiple callers?

GooglingTheCancerGenome / sv-callers

Snakemake-based workflow for detecting structural variants in genomic data

https://research-software.nl/software/sv-callers

Apache License 2.0

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What is the principle of merging records from multiple callers? #60

Closed yangyxt closed 3 years ago

yangyxt commented 3 years ago

What principle is used to merge results from different callers? Is this workflow simply merging everything into one vcf by SURVIVOR?

Thanks!

lsantuari commented 3 years ago

The workflow generates a file called all.vcf by applying SURVIVOR merge on the SV callsets generated by the four SV callers using the parameters specified in the file analysis.yaml.

arnikz commented 3 years ago

In addition to @lsantuari 's comment: you might also want to look at the Jupyter Notebook (part of this dataset) that doesn't rely on the SURVIVOR output but rather on StructuralVariantAnnotation package.