--collapse argument similar to Scoary-1

MrTomRod / scoary-2

Calculate assocations between genes and traits

MIT License

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--collapse argument similar to Scoary-1 #15

Closed punkRockdove closed 3 months ago

punkRockdove commented 3 months ago

Hi! I ran Scoary-2 and got my results so no issues there! I was just wondering if this new version was going to feature the --collapse argument that Scoary had.

MrTomRod commented 3 months ago

Dear @punkRockdove

Scoary2 does not need this parameter: After loading the genes, it collapses them based on their distribution patterns similar to original Scoary. However, it retains this information and expands the table of genes again at the end.

Thus, unnecessary multiple testing is avoided and all genes are present in the output.

Best, Thomas