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@eblerjana eblerjana released this 22 Aug 08:56
· 18 commits to master since this release
v3.0.0
ac0f55c

It is now possible to run a pre-processing step PanGenie-index prior to PanGenie to pre-compute data structures needed later during the genotyping step. The pre-processing step does not depend on any sample-specific data. It only needs the input VCF. When genotyping the same set of variants across multiple samples, PanGenie-index needs to be run only once. Afterwards, the pre-computed data can be provided to PanGenie with option -f in order to genotype a specific sample. Running genotyping in this way reduces the runtime and especially the memory usage, and is the recommended way of running PanGenie.

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