6 Meta transcriptomics

6.1 Overview

ASaiM-MT workflow for metatranscriptomics data.

Mehta et al. (2021)

6.2 Tools

• Kraken 2 Taxonomic classification system
• SortMeRNA Filtering, mapping and OTU picking
• SourMash Compare sequence similarity between datasets
• MetaPhlAn 2 Taxonomy quantitation / Community profiling
• HUMAnN 2 Functional quantitation

References

Mehta, S., Crane, M., Leith, E., Batut, B., Hiltemann, S., Arntzen, M. Ø., Kunath, B. J., Pope, P. B., Delogu, F., Sajulga, R., et al. (2021). ASaiM-MT: A validated and optimized ASaiM workflow for metatranscriptomics analysis within galaxy framework. F1000Research, 10, 103.