Date Author Log Options Exposure
2017-02-02 Test Author Testing OpenCOR's new PMR Workspaces widget with a trivial change to the CellML model. [files] [tgz] [zip]
2015-02-26 David Nickerson adding SGLT1 [files] [tgz] [zip]
2015-02-26 David Nickerson hacking in some annotations for the Weinstein 1995 NHE3 model [files] [tgz] [zip]
2015-02-25 David Nickerson adding a few more transporters and their annotations [files] [tgz] [zip]
2015-02-25 David Nickerson adding a few more transporters and their annotations [files] [tgz] [zip]
2015-02-25 David Nickerson adding a few more transporters and their annotations [files] [tgz] [zip]
2015-02-23 David Nickerson more annotations [files] [tgz] [zip]
2015-02-20 David Nickerson adding annotation for membrane location [files] [tgz] [zip]
2015-02-20 David Nickerson adding preliminary annotations for the H/K ATPase from Weinstein 1998 model [files] [tgz] [zip]
2015-02-16 David Nickerson adding a second dummy uniprot annotation for testing; now using the located_in property from the OBO Relationship Ontology to annotate a components cellular location (idea from Mikes document) rather than abusing the encapsulation grouping in the CellML model [files] [tgz] [zip]
2015-02-16 David Nickerson need to update annotations to specify the source document now that they are separate [files] [tgz] [zip]
2015-02-15 David Nickerson extract annotations to separate document [files] [tgz] [zip]
2015-02-03 David Nickerson adding an initial attempt at starting to create a comprehensive renal epithelial cell showing all the possible transporters and annotating them with UniProt terms. Currently this is just a basic start, but will gradually refine and add details. Using encapsulation to indicate location of the transporter on the apical or basolateral membrane, but this probably isn't the best way and should annotate containment, but not sure how to do this in OpenCOR. Also, OpenCOR doesn't provide direct access to UniProt terms for creating the annotations as it is not currently supported via PMR2, so I am manually adding the UniProt annotations. They are correctly displayed in OpenCOR. [files] [tgz] [zip]
2014-09-04 David Nickerson stupid little bug that has been bothering me for a long time. Found the bug thanks to the new model compactor code ( [files] [tgz] [zip]
2014-08-13 David Nickerson fixing error in definition of cubic centimetre units [files] [tgz] [zip]
2014-08-13 David Nickerson updating with some fixes [files] [tgz] [zip]
2014-07-22 David Nickerson adding a model which defines the base water flux equation, designed to be imported for each membrane and have the sum of each solute's contribution passed in [files] [tgz] [zip]
2014-07-16 David Nickerson update interface components to use the name 'interface' to make a consistent set of library modules for use in get-creator [files] [tgz] [zip]
2014-07-08 David Nickerson adding a copy of my standard chloride ion model to test out some ideas on generating cell models [files] [tgz] [zip]
2014-04-28 David Nickerson adding an initial README, mainly for use in the bitucket clone of this workspace [files] [tgz] [zip]
2014-04-27 David Nickerson fixing up 'typo' in the passive flux equation picked up now that I'm starting to try and create code from models generated by get-creator [files] [tgz] [zip]
2014-04-03 David Nickerson adding a copy of the passive flux model from the default passive cell mock-up model to use as the generic reusable passive flux model [files] [tgz] [zip]
2014-04-03 David Nickerson can remove the valence since we are after just the generic rate equation for a solute in a given compartment [files] [tgz] [zip]
2014-04-03 David Nickerson adding a copy of the calcium ion model to start making a generic solute rate equation model [files] [tgz] [zip]
2013-11-13 David Nickerson adding the total membrane and paracellular currents as variables in the model and the associated unit for current [files] [tgz] [zip]
2013-10-07 David Nickerson tidy up the potential units [files] [tgz] [zip]
2013-10-07 David Nickerson defining a common units map which maps the actual units we define to common names for use in all our models, this allows single changes to trickle through to all the models easily; updating all the small-molecule models to use these units; couple more correction in the default passive cell model picked up in the process [files] [tgz] [zip]
2013-10-07 David Nickerson adding more units that are needed for the passive cell template model; starting to add connections in the passive cell model through to the underlying intracellular dynamics models [files] [tgz] [zip]
2013-10-07 David Nickerson initial CellML model for the passive cell with a basic outline of the model and all the parameters; needed to add some more 'standard' units to cover all needs of this one. [files] [tgz] [zip]
2013-10-07 David Nickerson adding my default units collection as a independent workspace [files] [tgz] [zip]