Feature requests / bug reports should be submitted via the official GitHub repository.
Citations
If you find mOTUs useful in your work, please cite:
Cultivation-independent genomes greatly expand taxonomic-profiling capabilities of mOTUs across various environments Ruscheweyh HJ*, Milanese A*, Paoli L, Karcher N, Clayssen Q, Keller MI, Wirbel J, Bork P, Mende DR, Zeller G#, Sunagawa S# Microbiome. 2022 Dec 5;10(1):212. doi:10.1186/s40168-022-01410-z
For mOTUs2:
Microbial abundance, activity and population genomic profiling with mOTUs2 Milanese A*, Mende DR*, Paoli L, Salazar G, Ruscheweyh HJ, Cuenca M, Hingamp P, Alves R, Costea PI, Coelho LP, Schmidt TSB, Almeida A, Mitchell AL, Finn RD, Huerta-Cepas J, Bork P, Zeller G#, Sunagawa S# Nat Commun. 2019 Mar 4;10(1):1014. doi:10.1038/s41467-019-08844-4
For mOTUs1:
Metagenomic species profiling using universal phylogenetic marker genes Sunagawa S, Mende DR, Zeller G, Izquierdo-Carrasco F, Berger SA, Kultima JR, Coelho LP, Arumugam M, Tap J, Nielsen HB, Rasmussen S, Brunak S, Pedersen O, Guarner F, de Vos WM, Wang J, Li J, Doré J, Ehrlich SD, Stamatakis A, Bork P Nat Methods. 2013 Dec;10(12):1196-9. doi:10.1038/nmeth.2693
Protocol
For more information on how to run mOTUs, see:
mOTUs: Profiling Taxonomic Composition, Transcriptional Activity and Strain Populations of Microbial Communities Ruscheweyh HJ*, Milanese A*, Paoli L, Sintsova A, Mende DR, Zeller G#, Sunagawa S# Curr Protoc. 2021 Aug;1(8):e218. doi:10.1002/cpz1.218
mOTUs1
The codebase of the first version of mOTUs can be found here.
License
mOTUs is published under the GPL-3.0 license.
