Tutorial clc genomics workbench1/4/2024 First you will learn how to import your data into your workbench and how to prepare your samples for analysis with Optional Merge Paired Reads, Adapter Trimming, Fixed Length Trimming and the tool Filter Samples Based on the Number of Reads to obtain sequences that are comparable in length and coverage for clustering.Overview This tutorial will guide you through the different tools for analyzing NGS data from microbial communities. Prerequisites For this tutorial, you must be working with CLC Genomics Workbench 7.5 or higher or Biomedical Genomics Workbench 2.1 or higher, and you must have installed the Microbial Genomics Module. Secondary analyses include estimations of alpha and beta diversities in the context of sample metadata, in addition to statistical tests for differential abundance. The primary output of the clustering and tallying process is an OTU table, listing the abundances of OTUs in the samples under investigation. 97% similarity are clustered together and represented by a single OTU sequence. Due to the incomplete nature of bacterial taxonomy and presence of sequencing errors in the NGS reads, a common approach is to cluster reads at some level of similarity into representative sequences of pseudo-species called Operational Taxonomical Units (OTUs), where all reads within e.g. The bioinformatics task is then to assign taxonomy to the reads and tally the occurrences of species. Introduction To identify species present in microbial samples, DNA is extracted from the sample(s) of interest, a region of the 16S gene is PCR amplified, and the resulting amplicon is sequenced using an NGS machine. Tutorial: OTU Clustering and Analysis of Microbial Communities This tutorial will take you through the different tools available in the Microbial Genomics Module and CLC Genomics Workbench to perform OTU clustering and to estimate alpha and beta diversities in microbial samples. Tutorial: OTU Clustering and Analysis of Microbial Communities June 12, 2015ĬLC bio, a QIAGEN Company Silkeborgvej 2 Prismet 8000 Aarhus C Denmark Telephone: +45 70 22 32 44 Fax: +45 86 20 12 22 Ĭontents Tutorial: OTU Clustering and Analysis of Microbial Communities.
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