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ComparativeGenomicsToolkit / cactus

Official home of genome aligner based upon notion of Cactus graphs
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add range support for cactus-hal2maf #1336

Closed glennhickey closed 2 months ago

glennhickey commented 2 months ago

Add subrange support to cactus-hal2maf using --refSequence --start --length. Multiple ranges can be specified with the options. --bedRanges option also added to pass in the ranges as a file.

I need this to debug the strand bug in #1320 which happens on big input.

Also, resolves #1335.

cjmcmanus commented 2 months ago

Thanks Glenn! That was fast! How can we update our cactus-hal2maf script to try this?