Update Mtb transmission tutorial #6117
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A tool to define clusters based on SNP distance thresholds was implemented recently. This tool can substitute the cumbersome process of calculating clusters in an instance of Rstudio.
shiltemann
approved these changes
May 26, 2025
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thanks @GaloGS! |
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I have updated this tutorial for our workshop on MTB NGS data analysis.
In the previous version we were using Rstudio for one part of the analysis (transmission clustering) due to the lack of an appropriate tool for this purpose. However now there is a tool available (
Distance matrix-based hierarchial clustering) that streamlines the analysis .I have substituted the Rstudio part with the new tool in the tutorial.
In a second commit I have also fixed some typos and further references to Rstudio, which is not used anymore.