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ISME 2021 tutorial

MEGAN6 is a comprehensive toolbox for interactively analyzing microbiome data. All the interactive tools you need in one application.

• Taxonomic analysis using the NCBI taxonomy or a customized taxonomy such as SILVA
• Functional analysis using InterPro2GO, SEED, eggNOG or KEGG
• Bar charts, word clouds, and many other charts
• PCoA, clustering and networks
• Supports metadata
• MEGAN parses many different types of input

Videos

 Introduction to Microbiome Analysis using DIAMOND + MEGAN.

Publications

• Anupam Gautam, Wenhuan Zeng, Daniel H Huson, MeganServer: facilitating interactive access to metagenomic data on a server, Bioinformatics, 2023, btad105,
• Gautam, A, Felderhoff, H, Bagci, C, Huson and Huson, DH Using AnnoTree to Get More Assignments, Faster, in DIAMOND+MEGAN Microbiome Analysis  ASM Journals mSystems Vol. 7 No1 (22.2.2022)
• Arumugam, K, Bagci, C, Bessarab, I, Beier, S, Buchfink, B, Gorska, A, Qiu, G, Huson, DH, and Williams, RB (2019). Annotated bacterial chromosomes from frame-shift-corrected long read metagenomic data 
• Huson, D, Albrecht, B, Bagci, C, Bessarab, I, Gorska, A, Jolic, D, and Williams, RB (2018). MEGAN-LR: New algorithms allow accurate binning and easy interactive exploration of metagenomic long reads and contigs Biology Direct, 13(6).
• Huson, D, Beier, S, Flade, I, Gorska, A, El-Hadidi, M, Mitra, S, Ruscheweyh, H, and Rewati Tappu, D (2016). MEGAN Community Edition - Interactive exploration and analysis of large-scale microbiome sequencing data  PLoS Computational Biology, 12(6):e1004957.
• Buchfink et al, Fast and sensitive protein alignment using DIAMOND, Nature Methods, 2015, 12:59-60.
• Huson et al, Integrative analysis of environmental sequences using MEGAN4, Genome Res, 2011, 21:1552-1560.
• Huson et al, MEGAN analysis of metagenomic data, Genome Res, 2007, 17(3):377-86. 

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DIAMOND+MEGAN pipeline