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...
It”s often a good idea (especially for large datasets) to use a subset of the reads for some preliminary analyses. A smaller dataset can be useful for figuring out the alignment parameters or checking for alignment problems.