What’s the Answer? (zero- or one-based coordinate systems)

Biostars is a site for asking, answering and discussing bioinformatics questions and issues. We are members of the Biostars_logo community and find it very useful. Often questions and answers arise at Biostars that are germane to our readers (end users of genomics resources). Every Thursday we will be highlighting one of those items or discussions here in this thread. You can ask questions in this thread, or you can always join in at Biostars.

This week’s highlighted answer isn’t actually found at Biostars itself–but relied on the institutional knowledge at Biostars to assemble this helpful guide. This is a question that comes up so frequently, and burns both novices and seasoned practitioners on a regular basis, that I wanted to make sure people saw this curated information on which tools start with zeros and which ones with ones (er, and those with both….).

I won’t bring the whole post over like I usually do with Biostars, but here’s the link and a snip–go read it all:

Chromosome coordinate systems: 0-based, 1-based

….I’ve tried to figure out which website-application are using each coordinate system. The results can be found bellow. For each source, I provide the URL of the reference website where I found the information, and a caption where the system is described….