16s rRNA Sequencing Analysis and Visualization

Following the data preparation, this video attempt to outline some simple analysis in microbiome analysis and how it can be done simply with a wide varieties of tools. Email: liquidbrain.r@gmail.com Website: https://www.liquidbrain.org/videos Patreon:   / liquidbrain   Github: https://github.com/brandonyph/LiquidB... MiSeq SOP: https://mothur.org/wiki/miseq_sop/ MEGAN6: https://computomics.com/services/mega... Galaxy: https://usegalaxy.org/ Chapters: 0:00 Introduction 0:33 Inputs required 1:13 Analyses Included in this video 2:21 Goals for this video 4:23 Looking at the input files format 7:57 OTU identification and clustering 12:00 Phylotype Analysis 13:59 Alpha and Beta Diversity 19:25 PCA output in R 21:47 AMOVA between treatments 25:47 ggtree for tree plotting in R 29:10 Customization of ggtree 33:10 Galaxy + Krona 36:50 MEGAN6 41:35 Closing summary