Or other important methods (outside of standard Molecular Biology techniques) that would be appropriate to have a grasp of if wanting enter the field.
https://github.com/HullUni-bioinformatics/metaBEAT
this tool may be helpful
you can also follow that pipeline in this article
https://www.nature.com/articles/srep40368#materials-and-methods
Looking at MG-RAST service will give you a very good idea of the kind of analyses and info you can get from total (meta)genomic DNA sequencing.
https://academic.oup.com/nar/article/44/D1/D590/2503108/The-MG-RAST-metagenomics-database-and-portal-in
ftp://ftp.metagenomics.anl.gov/data/manual/mg-rast-manual.pdf https://en.wikipedia.org/wiki/MG-RAST
Try to play with MG-RAST server and MetAMOS pipeline:
http://metagenomics.anl.gov/
https://github.com/marbl/metAMOS
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