Bioconductor is an open source, open development toolset for analysing high-throughput genomic data. It is based on the R programming language (see last week’s post about R). Bioconductor can be used for a wide range of subjects from analysing assays, to querying databases or finding candidate binding sites for transcription factors.
A few pointers to get started with Bioconductor:
- Official webpage
- Help page
- User manual
- Statistics for Genomics – video lectures by Rafael Irizarry – (Make sure to take a look at this, it’s very useful!)
- Tutorial by Sean Davis
Bioconductor currently consists of more than 600 packages (for a full list, see here). The easiest way to figure out which ones you can use is to check out some of the sample workflows: e.g. see this one about NGS data analysis.