Скачать с ютуб SingleR EASY TUTORIAL: step-by-step cell type annotation in R в хорошем качестве

SingleR EASY TUTORIAL: step-by-step cell type annotation in R

In this tutorial I will explain how to do cell type annotation with the R package SingleR. After a brief introduction to reference-based automatic cell type annotation and SingleR, we will go step by step through the workflow, including preparing our input data, running SingleR, interpreting the results and some tips and tricks to get the most out of SingleR. For this tutorial, I’ll be using RStudio, and you’ll need the packages SingleR, tidyverse. I’ll also use a reference dataset from the package celldex(). You will learn how to: - get normalised counts from your Seurat object - prepare a reference dataset for SingleR - interpret SingleR's cell type predictions (deltas and pruned labels) - plot the cell types - add your cell types to your original Seurat object And as always, you can find the code I am using in this tutorial at biostatsquid.com, where you can also find a step by step explanation of the code. For this tutorial you will need R, or Rstudio, and you will need to install the package listed above. Hope you like it! https://biostatsquid.com/singler-tuto... -------------------------------------------------------------------------------------------------------------------- Watched it already? If you liked this video or found it useful, please let me know! Your comments and feedback are very much appreciated😊 If you have questions, don't hesitate to leave me a comment down below, I will answer as soon as I can:) If you like my content and would like to support me (in a more capitalistic manner), you might consider buying me a coffee. https://www.buymeacoffee.com/biostats... Big thanks for your support! -------------------------------------------------------------------------------------------------------------------- Are you into biostatistics and computational analysis? For more biostatistics tools and resources, you can visit: https://biostatsquid.com/ Follow me on Instagram at @biostatsquid for more • simple and clear explanations of biostatistics methods • computational biology tools • easy step-by-step tutorials in R and Python to analyse and visualise your biological data! Don’t forget to subscribe if you don’t want to miss another video from me! -------------------------------------------------------------------------------------------------------------------- Other interesting resources for cell type annotation: SingleR (Bioconductor): https://bioconductor.org/packages/rel... SingleR (publication): https://github.com/dviraran/SingleR Automatic methods in scRNAseq cell type annotation: https://www.sciencedirect.com/science...