How to plot a Heatmap in Rstudio, the easy way - Part 1/3

Download script here:

Part 2- K Means Clustering and Sub-cluster Determination

Part 3 - Heatmap Generation and Exporting plots as hi-res PNG

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Using the results from a typical RNA-Seq experiment, how could one conduct a hierarchical clustering analysis on the column and the row of the data? How could we use an external data source such as a CSV file prepared in Microsoft Excel? without any knowledge in R or Rstudio, is it possible to complete the plot within an hour? Yes, yes yes and maybe

R package and R studio download links (for windows)

More information:

Literature

[sukhvindersingh]

Hi, thank you very much for the excellent explanation of the heatmap by R. I am new to R and was struggling to prepare the heatmap, it will be really helpful. Your explanation to remove the first column, scaling and clustering were really great. I wish you make more videos, keeping the beginners in mind.

[DrHKM-uixn]

Thanx a lot, sir, you are the real teacher for R programming as compared to others who have good R knowledge in computation biology but unable to explain in a tranparent manner.

[emily]

Thank you for such a wonderful tutorial! I am currently following it to make figures for my

[macielrodriguez]

Thanks for the great tutorial! I'm in genetics, so I was very happy to see that the tutorials was using gene expression data! If possible, could you provide us with some example data to follow the tutorial more closely? thanks a lot in advance!

[TB-zvdq]

Thank you very much, great explanation !

[ankithashetty]

Thank you so much for this! This is a blessing for beginners. I went through many videos on heatmaps in R, but none were as detailed and easy to grasp as this one!

[noorulain]

thanks for the elaborated everything in a very comprehensive way.

[AbdifetahIOmar-zdgh]

Thank you so much your videos were helpful. very informative. I will also join your data analytics course. Keep up the good work. Let everyone who watched your videos help you with subscription

[fahdalhamdan]

Thanks a lot for the great explanation, keep it up!

[k.pintoirish]

Hello! Thanks for the video. I am having this error when I try to run the script for Pearson:
cannot allocate vector of size 1110.6 Gb

I have tried again increasing the memory but I keep having the same error :/ any clue to resolve this?

[hanifullah]

i have fpkm file of RNA seq data. I want to know can i follow the same steps as you followed or its already transformed and i just need to go for visualization. In fact i am very new to R studio and RNA seq analysis etc

[towhidabegum]

as a member of the group, do we have the privilege to discuss on a specific issue in R

[jonathansalazarleon]

Hi! Very good explanation! But I can't find part 2 and 3! Can you help me?!

[filippbezold]

Great work. Is the old script still available?

[angelaomilian]

this was a very helpful video. thanks!!!!

[MuhammadArshad-okbt]

I used your script to generate heatmaps that look great. But it has no option to add gene names. Do you have script to add gene names to the existing heatmap?

I would really appreciate your help. Many thanks in advance!

[aymsagagi]

what an excellent explanations, i really have no enough words to thank you. how can i get the 2nd and 3rd video for making a complete heatmap?

[jimpolisini]

Thanks for the very detailed explanation of the step-by-step changes you make in the database on the way to developing the heat map. Is the r-script posted anywhere on your website, so I could avoid errors, except for those I introduce editing to fit my database specifics?

[fahimalamnobel]

I want to visualize my data by OmicCircos. But when I try to install it into r studio, the result said the package is not available . But it is an r package. So what is the reason behind this? And how can I access this package in r studio?

[mahboobezamani]

Thanks for the helpful video. I am very new to R; i was wondering how can I get the R script file? Is it ready somewhere for download or we should write it?
Thanks