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jtamames / SqueezeMeta

A complete pipeline for metagenomic analysis
GNU General Public License v3.0
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Bins refinement in anvio #606

Closed azam17 closed 1 year ago

azam17 commented 1 year ago

Hi,

if the bins generated from the squeezemeta pipeline were manually refined through anvio, how do I integrate back the refined bins into the main squeezemeta pipeline so that i can analyze the newly refined bins through the sqmtools?

fpusan commented 1 year ago

Hi, There is no direct way to do this. We could think of implementing this in a future version. However maybe there is a hacky way to get what you need. What do you need to do exactly? In general, if you have a list of the contigs that belong to each bin after refinement, you can use the subsetContigs function to select just those.