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iqbal-lab-org / pandora

Pan-genome inference and genotyping with long noisy or short accurate reads
MIT License
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feat: adding param --partial-matching-lower-bound to pandora map, discover and command subcommands #353

Closed leoisl closed 7 months ago

leoisl commented 7 months ago

This PR adds the following param:

  --partial-matching-lower-bound FLOAT
                              Allows for partial matching between reads and a PRG. If this value is for e.g. 0.5, it means that pandora will match a read to a PRG if the cluster of hits has size at least 0.5 * expected cluster size for the given error rate and kmer value. Lower values allow for more hits, but possibly for false positive matches. [default: 0.5]