Consider whether or not this algorithm/workflow is worth including in utanos.
Fairly straightforward goal.
It does gain/loss calling based on segments alone (cluster-based . A direct replacement in other words to CGHcall but that doesn't consider bin-level rCNs and instead uses exclusively segmented calls.
At the same time consider Progenetix, but this tool is very cell-line specific. https://progenetix.org/
More of a nice-to-have if utanos had frequent usage for cell-line monitoring.
Consider whether or not this algorithm/workflow is worth including in utanos. Fairly straightforward goal. It does gain/loss calling based on segments alone (cluster-based . A direct replacement in other words to CGHcall but that doesn't consider bin-level rCNs and instead uses exclusively segmented calls.
labelSeg package: https://academic.oup.com/bib/article/25/2/bbad541/7595616 labelSeg github repo: https://github.com/baudisgroup/labelSeg
At the same time consider Progenetix, but this tool is very cell-line specific. https://progenetix.org/ More of a nice-to-have if utanos had frequent usage for cell-line monitoring.