Generating random genome annotations For different purposes, I often need to create random gene/features annotations. I usually need these annotations as a GRanges object (see the GenomicRanges package).
I searched a bit on the internet but couldn’t really find what I was looking for.
I want to be able to control the following parameters:
Number of genes
Gene sizes (~gaussian distribution with upper and lower bounds as parameters)
GGally is an extension of ggplot2. I use it mainly as a replacement/refinement of pairs in base R.
Here, I want to replace the default scatter plot used to compare 2 continuous variables with something nicer, especially adapted to plotting large number of points.
Load the library and some RNA-seq data:
library(GGally) library(airway) data(airway) The airway dataset contains data for 4 cell lines treated or not with dexamethasone:
First post! (better late than never…)
Looking for an easy way to create your website? Here are a few links that helped me get started: This tweet from Mara Averick first pointed me to this excellent tutorial.
Then I mostly used the blogdown introduction and the academic theme documentation
When I had problems, it sometimes helped me to get the messages from the hugo command.
system("hugo", intern=TRUE) I had some issues because my baseurl in the config.