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bxlab / metaWRAP

MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis
MIT License
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bin refinement skipped a number #177

Open DeaconOfBiology opened 5 years ago

DeaconOfBiology commented 5 years ago

I was looking through my bins created by the bin refinement module (underfolder metawrapbins). I have a total of 406 bins but the last bin is labeled 407. So I skimmed through them to see why and noticed that the numbering scheme skipped 131. Is this normal? Wondering if this was an error and I should run it again.

ursky commented 5 years ago

Most likely bin 131 was thrown out after the de-replication stage of the refinement because it did not meet the quality requirements. The module does not re-name the bins to maintain consistency with the intermediate steps. The module likely worked fine, and you are welcome to re-name the bins to whatever you like. Also - that a LOT of bins! Congrats.

DeaconOfBiology commented 5 years ago

Thanks! And thats with completeness and contamination set to 70% and 5%.

ursky commented 5 years ago

Wow. I'm curious, how much sequencing data did you use? And is this a gut microbiome?

DeaconOfBiology commented 5 years ago

This is not gut microbiome. This is deep subsurface microbiomes from volcanic fore-arch hot springs. Total clean read files (forward and reverse) came out to 506 gb of data

ursky commented 5 years ago

Impressive depth! Bet the assembly took a while...

DeaconOfBiology commented 5 years ago

On our computer with 16 cores it took a little over a week.

DeaconOfBiology commented 5 years ago

scratch that, 10 cores.