Calis-p: Calis-p (The CALgary approach to ISotopes in proteomics) is a software package to directly extract stable carbon isotope fingerprints (SIFs) of individual species in a microbial community from a metaproteomic dataset.
MetaAmp: is designed for analyzing universally conserved phylogenetic marker gene amplicons (e.g. 16S/18S rRNA). It clusters amplicon reads of metagenomic data into OTUs and generates diversity indices and taxonomic composition of the input communities . It accepts both single and paired end sequences in either fasta or fastq format from various sequencing platforms (e.g. 454, MiSeq).
PlasMapper: automatically generates and annotates plasmid maps using only the plasmid DNA sequence as input.
HMP Web Porter: for Metagenomics for Greener Production and Extraction of Hydrocarbon Energy project.