I have a couple of metagenomic samples in the form of genomic assemblies and I wanted to perform binning and generate ESOM (Emergent self organizing maps) similar to the one mentioned in Figure#1 of this paper. The primary objective is to generate ESOMs. I have tried to go through some papers and I found that binning could be performed based on genomic signatures (i.e. di, tri or tetra nucleotide frequency) generated from metagenomic contigs. There are infact few scripts available to generate those signatures ; for e.g. this one here which could be used as input to databionics ESOM tools.
I have a couple of questions:
Apart from the metagenomic contigs, is there anything else that is required as input or to generate necessary files to be used as input to ESOM tools?
The installation page for ESOM tools mentions to download some files required for MATLAB. is MATLAB absolutely necessary to generate ESOMs? MATLAB is a paid software as per my information.
Finally, can someone point me to a good tutorial/ material for a step-by-step guide to generate ESOMs?
Let me know if someone requires additional details to answer my questions.