FAME Bioinformatics Software

Many Bioinformatics tools for performing a variety of analyses have been created by current and past members of FAME. Browse our currently-maintained, open-source, and freely available Bioinformatics tools by category below.

FOCUS

FOCUS: An Alignment-Free Model To Identify Organisms In Metagenomes Using Non-Negative Least Squares Usage.

Hecatomb

Hecatomb is a pipeline for accurately classifying viral sequences in metagenome samples.

PHANOTATE

PHANOTATE is a tool to annotate phage genomes.

Phispy

PhiSpy identifies prophages in Bacterial (and probably Archaeal) genomes.

Prinseq

PRINSEQ is used for easy and rapid quality control and data preprocessing of genomic and metagenomic datasets.

SUPER-FOCUS

SUPER-FOCUS: A tool for agile functional analysis of shotgun metagenomic data