Hi all, I made a video on making heatmap with R and how to understand it deeply https://www.youtube.com/watch?v=7fQkPUqusTg&t=1s The Rmarkdown file https://github.com/crazyhottommy/compbio_tutorials/blob/main/scripts/01_how_to_make_a_heatmap.Rmd If you use …

Hello, I am trying to display a heatmap using gplots heatmap.2 function, borrowing the data from: http://www.opiniomics.org/you-probably-dont-understand-heatmaps/ My problem is with regards to the scale="row" …

[my heatmap with gplot][1] I have been trying heatmap with gplot as i wanted to get a zscore in my plot, i use pheatmap but …

Hello all, I have a series of .idat files I am willing to cluster (I am actually replicating some publication's results). Here is how the …

Hi, I am testing freebayes on tumor/normal pairs. it seems no matter I put normal or tumor bam first on the command line, the sample …

I recently wrote a tutorial on how to do heatmap and PCA in R. you can follow the link here http://rpubs.com/crazyhottommy/heatmap_demystified Enjoy! Tommy

Hi Biostars, I recently read a post on heatmap by Mick Watson https://biomickwatson.wordpress.com/2015/04/05/you-probably-dont-understand-heatmaps/ Also see a previous post at biostars https://www.biostars.org/p/91978/ They cleared some of …

Hi there, I have a RNA-seq experiment with four samples. control, treatment1, treatment2, treatment3. each with duplicates, I used DEseq to determined the differentially expressed …

I'm comparing two ways of creating heatmaps with dendrograms in R, one with `made4`'s `heatplot` (from bioconductor) and one with `gplots` of `heatmap.2`. The appropriate …

<p>Hi all,</p> <p>I am having a hard time to extract the corresponding subgroup members in the heatmap generated by heatmap.2 in gplots. I have looked …