harish0201
commented
2 years ago Not the author, but here's what I'd suggest, but this is what nfcore/mag does so it does have some merits.
Since you've 30 samples assembled individually and want to bin them together would be perform alignments from all the reads to the assembly. That is 30 assemblies 30 datasets mapping to them. This would effectively mean that you'd be getting 3030=900 aligned bams/sams. Then you can do the binning with either/all of the 3 tools.
Hi, I individually assembled 30 metagenomic soil samples collected from different sites cross the country. Is it reasonable to mapping all samples to a specific assembly to calculate coverage depths cross different samples, in order to improve binning results? As shown in Fig. 2B in your paper "Applying Genome-Resolved Metagenomics to Deconvolute the Halophilic Microbiome". https://www.mdpi.com/2073-4425/10/3/220 I am not sure whether I exactly understand your viewpoint about cross samples binning in the paper. Best regards!