NCBI SRA and retrieval of submitted sequences, explanation of various index files and draft genome assemblies.
Hands on raw sequences quality analysis, trimming and improvisation using FastQC,
Cutadapt, trimmomatic etc.MG-RAST server Workflow, Short Metagenomics (pre-processing, dereplication, screening to remove reads that are near-exact matches to the genomes of model organisms such as fly, mouse, cow and human etc., gene calling.
Filter proteins, Cluster proteins at 90% identity level using uclust, protein identification, annotation mapping, abundance profile, summary report.
16s Metageomics ( RNA detection, clustering and identification, annotation mapping and abundance profiling Plotting of results such as taxonomic classification and relative abundance chart of themicrobial communities
Generation of functional biome tables etc.