Hello, On 20 March 2013 18:09, Jerven Bolleman <m...@jerven.eu> wrote:
> So instead of chromosome M you are really talking about assembly X of > a set of reads R mapped via some (variant calling) processes to > reference chromosome C that is also really an assembly of a different > set of reads. Just to add to Jerven's comment: even when referring to a reference assembly, it is best to add "Which version?". Even when talking about reference genome assemblies, you have multiple versions (including "patches"). Additionally, when interpreting the genomes, you will also get different results from various institutes (genes from UCSC are not the same as Ensembl). I think my point here is that chromosomes (or anything, really), has provenance that needs to be explicitly denoted. Best, Joachim