Ecological Processes in Community Assembly
Learn how to quantify the relative influence of ecological processes underlying community assembly using various metrics like betaMNTD, betaNTI, and Bray-Curtis. This tutorial guides you through the steps of analysis and provides insight into the governing processes of each pairwise comparison.
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Presentation Transcript
IEG-SAP Tutorial Quantifying relative influence of ecological processes underlying community assembly Including betaMNTD, betaNTI, Bray-Curtis, RCBray, and governing process of each pairwise comparison Daliang Ning 2019.2.7
Login http://ieg3.rccc.ou.edu:8080/ This is still a beta version of our newest statistical analysis pipeline. Contact Daliang to set up your account
Change password User Preferences Change password 1 2 3
Create new history History is like a folder under your account. 3 1 2
Upload OTU table (1) OTU table should be a tab-delimited txt file. first column should be OTU IDs, first row should be sample IDs
Upload OTU table (2) Get Data Upload File Choose local file then select your OTU table file 1 2 5 4 3
Upload tree file The phylogenetic tree file should be .nwk format Uploading is the same as uploading OTU table.
Match IDs Check whether the OTU IDs in OTU table and tree file match well. 1 3 4 2 5 6 7
Calculate phylogenetic distance matrix Diversity Big Phylogenetic Distance 3 1 4 5 6 2
Quantifying assembly process The method developed by Stegen et al. Mechanism Quantifying assembly process 3 1 4 5 6 2 7 Stegen 2012 ISME J, Stegen 2013 ISME J, Stegen 2015
Download results The result file is a tab-delimited txt file You may download it and use excel to open it 1 2 3 4 See Stegen 2015 for detail description of each process Stegen JC, Lin X, Fredrickson JK, Konopka AE. 2015. Estimating and mapping ecological processes influencing microbial community assembly. Front Microbiol 6:370.
