[ensembl-dev] General feature 'projection' script?
dbolser at ebi.ac.uk
Thu Jun 28 09:55:24 BST 2012
Many thanks Andrew,
Looks like a very useful script!
Actually, I was after something simpler, a way to move features
between coordinate systems _within_ one assembly. I haven't started to
try to code this yet (looking for something ready made first), but
hopefully the 'hard' part is just plumbing in command line options 
to a project call  over the selected features.
On 27 June 2012 20:32, Olson, Andrew <olson at cshl.edu> wrote:
> Hi Dan,
> I have a general purpose script that I've used to map features in bulk from one assembly to another. It operates on tab delimited files (like from mysqldump) and uses a mapping file to guide the projection. This lets you project features on many tables and then import the new tables to another core database. One warning though, it doesn't require the start and end coordinates of a feature to be the same distance apart, but this check can be added at about line 36 if needed.
> On Jun 27, 2012, at 1:58 PM, Dan Bolser wrote:
>> Does anyone have a a 'general' (type agnostic) feature 'projection'
>> script? i.e. a script that will project all features to toplevel, or
>> feature type x from level y to level z in a given core database?
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