Posted on Sat 04 May 2024 in how-to • Tagged with R, shiny, app, RNAseq, bioinformatics, data-visualization
How do you communicate results of an analysis? What tools do you use? Scientists that work in the wet lab are accustomed to firing up excel or some instrument-specific software and working with their own data. For genomics or other types of experiments in biology that result in large datasets …
Posted on Sun 21 April 2024 in how-to • Tagged with bioinformatics, data-visualization, rnaseq
One of the, if not the, most common downstream analysis task I'm asked to perform on RNAseq data is to generate the venerable "Volcano Plot." These are kind of the bioinformatics equivalent of saying "Hey! Look how much data I have!" Regardless, they are a pretty good way to quickly …
Posted on Fri 28 June 2019 in how-to • Tagged with bioinformatics, data-visualization
Last time we prepared our data using Deeptools.
Now we're going to do something kind of scandalous. R and python, living together in peace. What is this madness? I like R's ecosystem for manipulating data and plotting with the tidyverse. It still requires some tweaking, but with a bit of …
Posted on Thu 27 June 2019 in how-to • Tagged with bioinformatics, data-visualization
Commonly, in bioinformatics we're in the business of determining whether something, be it gene expression, or DNA methylation, or splicing, etc. is different between multiple conditions. Typically this would be done by comparing those data and using some kind of statistical test. However, with the continued advances in sequencing technologies …