Re: [Gmod-ajax] Formatting using GFF notes and some other stuff

[Mitch S. <mit...@be...>]

On 07/30/2010 06:37 AM, David Breimann wrote:
> Well, I also always use 0-based coordinates when I program (as is the 
> rule for arrays in java, perl etc.), but for the user interface - I 
> think it's better show coordinates starting from 1 (as is the rule in 
> all biological databases). For example, when looking at some gene of 
> interest, I think the user expects to see the same coordinates as will 
> be shown in genbank, UCSC genome browser etc. Otherwise, this might 
> cause confusion.

I've slowly come around to thinking that we will have to support this 
unfortunate convention.  UCSC does the same thing; everything is 
interbase except the numbers that it shows people.  Hopefully we can 
isolate this weirdness to one part of the code, and not have " + 1" 
sprinkled all over the place.b

> Also, I will appreciate a response for my previous message (cluases 
> 1-5, below).

A few days ago:
http://gmod.827538.n3.nabble.com/Gmod-ajax-Formatting-using-GFF-notes-and-some-other-stuff-tp998491p999264.html

Mitch