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Original Tutorial: https://training.galaxyproject.org/tr...

Volcano Plot Tutorial:   • RNA Seq Analysis | How to visualize g...  


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Download the dataset here: https://github.com/vappiah/Transcript...
Download the R Script here:   / 79708099  


Chapters

00:00 Intro
02:43 Load R libraries
03:38 Load the dataset
07:11 Set the factors
08:19 Create deseq DESeqDataSetFromMatrix() dds object and import coutn data and sample information
11:37 Filter genes
14:08 Perform statistical tests to identify differentially expressed genes (result dds)
17:27 Change the deseq_result data into a dataframe as.dataframe(dds)
18:34 Order the deseq_result
20:48 Make queries
24:20 Filter differentially expressed genes.
28:45 Save deseq result
31:28 Examine the output files
33:06 Visualize deseq result
33:24 Plot dispersions
35:30 PCA Plot
43:08 Heatmaps
44:11 Heatmap of sample-sample distance matrix using pheatmap
52:37 Heatmap of log transformed normalized counts using pheatmap
1:02:18 Heatmap Z-scores
1:06:51 MA Plot
01:11:37 Volcano plot using ggplot
01:16:31 Next Tutorial



DESeq2 R Tutorial

Transcriptomics
RNA-Seq Analysis
RNASeq
RNA Seq
Gene expression
RNA Seq Analysis - Bioinformatics Project
DESeq2 tutorial for gene expression analysis

bioinformatics for beginners
bioinformatics tutorial
bioinformatics course
Bioinformatics Project

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