Antonio's Portfolio

Parallelization with R

Posted on Mon 31 July 2023 in R • Tagged with Bioinformatics, gene expression, edgeR, furrr

Introduction

Sometimes, some computations can be carried out in parallel. Certain large tasks can be divided into independent ones, allowing them to be solved at the same time, rather than waiting for each task to be solved sequentially.

I find the native R parallel functions such as mclapply(), or those …

Differential Expression Analysis with edgeR in R

Posted on Mon 26 October 2020 in R • Tagged with Bioinformatics, gene expression, edgeR

Introduction

In my previous post I demonstrated how to organize the CGC prostate cancer data to a format suited to differential expression analysis (DEA).

Nowadays, DEA usually arises from high-throughput sequencing of a collection (library) of RNA molecules expressed by single cells or tissue given their conditions upon collection and …