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wwood / CoverM

Read coverage calculator for metagenomics
GNU General Public License v3.0
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Support for strobealign #186

Closed PoisonAlien closed 2 weeks ago

PoisonAlien commented 9 months ago

Hi,

Thanks for the tool. Could you please consider supporing strobealign as a mapper option. It has both the aligner and mapping functions - similar to minimap2 - and can output PAF as well. I guess this would make integration bit easier?

julianzaugg commented 1 month ago

@wwood just adding to this. As per the changelog, it appears as strobealign support was added in ver. 0.7.0, however it is not listed under --mappers in the documentation (at least for coverm genome; other related parameters are present, e.g. --strobealign-params). I also just installed ver. 0.7.0 through conda and it appears to have failed to install strobealign.