Question: How to create the matrix of expression values from different gene lists for generating heat map?
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mirza • 80 wrote:
Hi,
I have several lists of up-regulated and down-regulated genes (with their fold change values). Different genes are expressed in different conditions. Now how to create the matrix for heat map generation using all these genes lists? As I have hundreds of genes, manually searching each gene in all the lists and feeding its respective fold chane will be insane
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modified 2.6 years ago
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Carlo Yague • 4.4k
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2.6 years ago by
mirza • 80
This seems like a very basic task... Can u script with R or python ? or do you want an answer based on Excel ?
better be excel right now. I am trying to learn R
https://nsaunders.wordpress.com/2016/08/25/data-corruption-using-excel-12-years-and-counting/
I get it, its really a bad choice to use excel. Please suggest some solutions. Please direct me to some tutorials or web page or forum discussions where I can find the answers.
Please suggest some solution with R, I can us it to some extent. I know we can use ggplots but I think I need to create the matrix first?
Yes you need a matrix first. There are plenty of R tutorials around. Here is one on loading data into R. For data wrangling, you have the choice of several packages such as dplyr (tutorial) or data.tables (introduction to data.tables).