https://staging.physiomeproject.org/workspace/a1 en-us This workspace is an initial attempt to capture the data from a review of cardiac cellular electrophysiology mathematical models. https://staging.physiomeproject.org/workspace/a1/@@file/1c3a018574af68610e2b95973f32fa831ea3096f Updates to get things working with OpenCOR 0.7.1 David Nickerson 2023-04-27 https://staging.physiomeproject.org/workspace/a1/@@file/1b3862589abf79ae9119ee0b5e99a8b785d762e1 tweak html formatting David Nickerson 2021-09-17 https://staging.physiomeproject.org/workspace/a1/@@file/cb57fb184bb001a313bfc4ee6ae0b14d5b3726d2 tweak html formatting David Nickerson 2021-09-17 https://staging.physiomeproject.org/workspace/a1/@@file/c47db6b2fedb368422c7f4d5191aeb9f319ad684 tweak html formatting David Nickerson 2021-09-17 https://staging.physiomeproject.org/workspace/a1/@@file/8dd68758effecc911dfb7f490172e0e8c80d51cb updating documentation in prepraration for making an exposure. David Nickerson 2021-09-17 https://staging.physiomeproject.org/workspace/a1/@@file/0055adafccbed1252d9e05d255e522f7838c80f3 new approach to documenting the jupyter notebook for an exposure on PMR David Nickerson 2021-09-17 https://staging.physiomeproject.org/workspace/a1/@@file/949867b85ca12d6552f0140eb845159573e98ca8 adding preliminary exposure doc page David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/fd13124bd991717939abd81526061362045b09d8 adding final jupyter notebook and an HTML export David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/f1c90ad650e6918f39182e8a769e4897505abe7f update jupyter notebook with TNNP simulation experiments David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/84e3cc1a5823644069c78ea46804b0a3a6dd4c40 Updating TNNP model periodic stimulus simulation experiments: * exposing the membrane potential at the top-level; * adding SED-ML. Using OpenCOR Snapshot Release 2021-09-14. David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/9ac54f48695cc24c4b7acd5b8d13b8e20c6800fe adding SED-ML for LRd, JRW, and N98 models and adding them to the jupyter notebook David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/ab0ecb950e3419f414b804ff0022c328f36fc046 adding SED-ML for LRd, JRW, and N98 models and adding them to the jupyter notebook David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/80416d8e0030f87ba718bdc5fa79415c9a67e0fc updating jupyter notebook with LR 1991 figure David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/53b070ec6d825b9a6fa4b0befe9199efe2e32de6 Updating Luo & Rudy 1991 model: * exposing membrane potential and time variables at top-level; * adding SED-ML for each of the [K]o simulations. Using OpenCOR snapshot release 2021-09-14 David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/43f20681b64fe8ccaf19dc325b0ac0b8aa7d84fe update to jupyter notebook David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/ae7a0b93f4ee5fda3d81ba97eb459f958b2819c9 Upadte jupyter notebook with MNT and DFN comparison figure David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/b35bfdf1c4bd372baea9804ce80c319ea0aa692e adding SED-ML for DFN model David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/1f3e877163d4caa8e1e97a9fc195f610d0e59095 update MNT model: * exposing membrane potential at the top level; * adding SED-ML; Using OpenCOR snapshot release 2021-09-14 David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/faebb18f1db53a7d1f8f4e7fc588d660d45744c0 adding BR variant comparison to jupyter notebook David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/63afb7738c3d3559c5e0fe1640d3996ddce0b30b updating variants of BR model and adding SED-ML David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/d412df1262b5d304578dbe443e93f23fd5dfc786 adding Noble 1962 comparison to the jupyter notebook David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/f954e59183314cd37f86c8832dc81317d01c8ec5 Updating Noble 1962 model: * Exposing the membrane potential to the top-level model; * adding SED-ML for the paced and pacemaker variants of the model. Using OpenCOR Snapshot release 2021-09-14. David Nickerson 2021-09-16 https://staging.physiomeproject.org/workspace/a1/@@file/392074bea7b772e0139f6cbcd0f9a2ae562bb0ca Update jupyter notebook with FK-BR comparison to original BR model David Nickerson 2021-09-15 https://staging.physiomeproject.org/workspace/a1/@@file/faec014e4ba6524541fe8093d6bf343861caacfd Updating BR model with SED-ML for the default periodic stimulus simulation experinment David Nickerson 2021-09-15 https://staging.physiomeproject.org/workspace/a1/@@file/797bc599b7ec66eef984e817d4ce138aabd116a6 update jupyter notebook with FK model results David Nickerson 2021-09-15 https://staging.physiomeproject.org/workspace/a1/@@file/75e25506b234af607db332293716e28cb85ead44 Update Fenton & Karma model: * Adding membrane potential and time to the top-level output variables; * Adding SED-ML for each of the simulation experiments for the variants of the model. Using OpenCOR snapshot release 2021-09-14. David Nickerson 2021-09-15 https://staging.physiomeproject.org/workspace/a1/@@file/79d86640f1855a792831253f68c2ed46b9ad2af3 adding ignore file to ignore the jupyter checkpoints David Nickerson 2021-09-15 https://staging.physiomeproject.org/workspace/a1/@@file/bc5ea6aa63654095d87909660b6bebea02003383 adding initial Jupyter notebook for cardiac cellular electrophysiology book chapter David Nickerson 2021-09-15 https://staging.physiomeproject.org/workspace/a1/@@file/077833f63bee089a0bb0061d4c295ab133ebab35 Updates to Aliev and Panfilov model: * Make sure model is valid OpenCOR CellML Text format; * Make sure model is valid CellML; * Add SED-ML for single stimulus experiment. Using OpenCOR snapshot 2021-09-14 David Nickerson 2021-09-15 https://staging.physiomeproject.org/workspace/a1/@@file/96fe25cd6827b8bd3efaf2278117586cde5a3979 Updates to Rogers and McCulloch model: * Make sure model is valid OpenCOR CellML Text format; * Make sure model is valid CellML; * Add SED-ML for single stimulus experiment. Using OpenCOR snapshot 2021-09-14 David Nickerson 2021-09-15 https://staging.physiomeproject.org/workspace/a1/@@file/a26c8f6bf655d7de97fbc8d4197ca492804c735a Updates to FHN model: * Make sure model is valid OpenCOR CellML Text format; * Make sure model is valid CellML; * Add SED-ML for single stimulus experiment. Using OpenCOR snapshot 2021-09-14 David Nickerson 2021-09-15 https://staging.physiomeproject.org/workspace/a1/@@file/1e62f9a11a1b467aff7bc1ddd0b4fc8ac3f052c0 adding a standalone version of the SED-ML document for this example, updating to pass validation using Frank's new web tools David Nickerson 2011-06-21 https://staging.physiomeproject.org/workspace/a1/@@file/0b61cf0bc2ee4a696e08c67f233a2b5708b66974 correcting errors found with newer versions of the CellML API: e-notation; namespace; and an initial value is required for state variables. The initial value on x1 fixes the problem reported on tracker item 2521 David Nickerson 2010-07-06 https://staging.physiomeproject.org/workspace/a1/@@file/bbd06c65e953d30d2761a3852de606f2abd45174 removing duplicated connection picked up while working on tracker item 2521 David Nickerson 2010-07-06 https://staging.physiomeproject.org/workspace/a1/@@file/f6abb6ddf64cd14f421f0e3d9131b6985b7b356e finishing off initial draft SED-ML version of graphing and simulation description. Still doesn't validate in libsedml but looking into this with Frank Bergmann David Nickerson 2010-05-04 https://staging.physiomeproject.org/workspace/a1/@@file/a80b964384c0c7683d7c5d07b73a5af7a973d46c adding initial version of SED-ML L1V1 file reproducing what is in graphs/BR-INa-variants.xml David Nickerson 2010-05-04 https://staging.physiomeproject.org/workspace/a1/@@file/97774d2a949fcd79c88431867e74a45e459b9d8b adding V to the top level model in order to test out SED-ML L1V1 since need to be able to address variables using xpath David Nickerson 2010-05-04 https://staging.physiomeproject.org/workspace/a1/@@file/2d55d1ae86cfd6144a02402b9a6131de00b20601 typos David Nickerson 2009-07-16 https://staging.physiomeproject.org/workspace/a1/@@file/ab7a88d72b14644e330d7477a35b09eed473a533 adding my initial description of the IUPS 2009 tutorial David Nickerson 2009-07-16 https://staging.physiomeproject.org/workspace/a1/@@file/f6a8f90307388eb4b040ee3566b84d88b59247f7 the starting point for the HH tutorial example David Nickerson 2009-07-16 https://staging.physiomeproject.org/workspace/a1/@@file/119e474c51b4554d6d043ee5dcf1dc21381514e8 copying the finished experiment model to start work on a semi-complete version for the tutorial participants to complete David Nickerson 2009-07-16 https://staging.physiomeproject.org/workspace/a1/@@file/393a299639b6f97641a68c33d8020b41b3600d94 adding a sketch of the modified HH-N62 model structure David Nickerson 2009-07-13 https://staging.physiomeproject.org/workspace/a1/@@file/9b52e49363cdf8cd42b772b63ec3062a9b344ae6 adding initial sketch of base HH model David Nickerson 2009-07-13 https://staging.physiomeproject.org/workspace/a1/@@file/00fdb3c918038b657f78cb69566d62edc1878a3e update web page to point to the current revision of the generated content David Nickerson 2009-07-08 https://staging.physiomeproject.org/workspace/a1/@@file/3d4e6bf98dd9bad94b65a1d1001cd4d0e779b8f4 adding generated content for the current version of the IUPS tutorial description David Nickerson 2009-07-08 https://staging.physiomeproject.org/workspace/a1/@@file/108184be692f8b677f43a4bb6751dbcb833e1929 adding models for the S1S2 stimulus applied to the TNNP model and extending the tutorial description for the complete list of simulations, at present David Nickerson 2009-07-08 https://staging.physiomeproject.org/workspace/a1/@@file/0c824288680f5949ea1972a76176826599ef6d26 renaming files in order to move to a single reference description for the entire tutorial David Nickerson 2009-07-07 https://staging.physiomeproject.org/workspace/a1/@@file/5bddab0f3d6da69a8af5f8d8854027f9cd4a1f9e update to point to the lastest generated content David Nickerson 2009-07-07 https://staging.physiomeproject.org/workspace/a1/@@file/e29e9c36d696ff8ebbdd216cefd51c10453d19c5 adding the generated content for the next iteration of the reference description David Nickerson 2009-07-07 https://staging.physiomeproject.org/workspace/a1/@@file/98909b01e6b21653a5e1cd28865dd259c586d490 update for modified HH graphs in tutorial description David Nickerson 2009-07-07