Category: statistics

Outline of first year data analysis course

This outline is mainly for people who aren't first year undergrads at Leicester, but who might be interested in using this course to improve their data analysis or get a taste for R. There are mini lectures and associated practical sessions. The lectures slides might not make sense by themselves, but will give you an … Continue reading Outline of first year data analysis course →

Going from a list of accession numbers to a formatted latex table

I just want to highlight two packages in R that really do something useful. mygene (https://bioconductor.org/packages/release/bioc/html/mygene.html) takes a list of accession numbers and gets back genbank records. This is something I'm always doing. There are probably lots of good ways of doing this. xtable (https://cran.r-project.org/web/packages/xtable/index.html) is a bit more unique. It can take an R … Continue reading Going from a list of accession numbers to a formatted latex table →

Permute? or no?

This post covers brief findings from exploring permutation tests when looking for differentially methylated genes from whole genome bisulfite sequencing. The idea behind it: if we randomly shuffle the data between control and treatment samples and see roughly the same number of genes coming out as differentially methylated then we can't say the genes we originally … Continue reading Permute? or no? →