Hello Biostars, I just wrote this tutorial on how to calculate partial correlation. https://divingintogeneticsandgenomics.com/post/partial-cor/ It was for my understanding of using linear models to calculate …

Hello Bioinformatics lovers, I wrote a tutorial on how to download TCGA RNAseq count data and make a PCA and heatmap with it. https://divingintogeneticsandgenomics.com/post/pca-tcga/ Enjoy! …

Hello, I wrote this blog post to understand how PCA projection, KNN and MNN work in Seurat for single-cell label transfer work. https://divingintogeneticsandgenomics.com/post/pca-projection/ Enjoy! Tommy

Hi all, I made a tutorial explaining what is SingleCellExperiment object and use an example you can follow. Script: https://github.com/crazyhottommy/compbio_tutorials/blob/main/scripts/08_intro_to_singleCellExperiment.Rmd Video: https://www.youtube.com/watch?v=eTzh6iWPqeQ Happy Learning! Tommy

Hi all, I made this tutorial on how to plot the percentage of cells in a single cell data in ggplot2 and label the y-axis …

Hi all, I just wrote this blog post showing how to use random forest as a clustering method. https://divingintogeneticsandgenomics.com/post/use-random-forest-as-a-clustering-method/ Enjoy! Tommy

Hi all, I wrote this tutorial https://divingintogeneticsandgenomics.com/post/how-to-convert-raw-counts-to-tpm-for-tcga-data-and-make-a-heatmap-across-cancer-types/ Hope it is useful! Happy Learning! Tommy

Hi, I made this video to show you how to do GSEA in R and understand the GSEA plot https://www.youtube.com/watch?v=IKCDQEpuJDA The R script is at …

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 …

It is critical to understand how `scale` parameters work inside the heatmap and heatmap.2 function. It is also critical to choose distance measure and linkage …