MTD is a software that has two sub-pipelines to jointly analyze of host transcriptome with its microbiome by using bulk RNA-seq and single-cell RNA-seq data, respectively. It supports comprehensive microbiome species, including viruses, bacteria, protozoa, fungi, plasmids, and vectors. MTD is executed in Bash in GNU/Linux system. Users can easily install and run MTD using only one command line and without requiring root privileges. The outputs (graphs, tables, count matrixes, etc.) are automatically generated and stored in the designated directory/folder defined by the user.

Application Number

1-12256710345 (copyright)

Date of Application

February 17, 2023


Binhua (Julie) Ling and Fei Wu