MUSiCC

MUSiCC is a software package for normalizing and correcting gene abundance measurements derived from metagenomic shotgun sequencing. For intra-sample gene normalization, it uses a set of genes that are universally present in a single copy in every organism to learn a normalizing factor for each sample. For inter-sample gene correction, it uses a gene-specific model that was trained using data from the Human Microbiome Project to correct the abundances of the genes in the given data. MUSiCC takes as input a raw gene abundance file, and returns a normalized and corrected gene abundance file.