https://staging.physiomeproject.org/workspace/6bc en-us cellLib This workspace holds common cellular components. Add a steady state example https://staging.physiomeproject.org/workspace/6bc/@@file/a7940fcacd455a09bdb7beac0da91eca79cf1adb Add a steady state example WeiweiAi 2023-04-04 solve the ss of enzyme cycles- hard coded https://staging.physiomeproject.org/workspace/6bc/@@file/7b86ecca6334bddd7170deef1a085546dd42c5ce solve the ss of enzyme cycles- hard coded WeiweiAi 2023-03-07 Remove q and its ode in Se_BG https://staging.physiomeproject.org/workspace/6bc/@@file/be4db1cb7bdb17d9500fe90012ba8759b0ee41e9 Remove q and its ode in Se_BG WeiweiAi 2022-08-29 Add readMatrices and writeBGparas; modify whichComp to be string array; update readme https://staging.physiomeproject.org/workspace/6bc/@@file/7a0891202d18fe6d01956b6768e3f10c3dc802c6 Add readMatrices and writeBGparas; modify whichComp to be string array; update readme WeiweiAi 2022-08-17 allow to connect a port https://staging.physiomeproject.org/workspace/6bc/@@file/d4a0f3d57c7889c0c0121ede3eebb95f7304d5a1 allow to connect a port WeiweiAi 2022-08-16 Add Ce_BG for chemical species; https://staging.physiomeproject.org/workspace/6bc/@@file/a1dd1872c24d859834e27b7193a2317e7a4af835 Add Ce_BG for chemical species; Change C_BG to model the electrical capacitor; Add the first version of build BG script based on stoichiometry matrices. WeiweiAi 2022-08-15 Add BG paras_conv.m https://staging.physiomeproject.org/workspace/6bc/@@file/4d87e24edb3731b3379a42ab58e90c4c1c0a7f7b Add BG paras_conv.m WeiweiAi 2022-08-02 Add the BG of a chemical reaction https://staging.physiomeproject.org/workspace/6bc/@@file/c856b59f39db721d14e9e3e77a231ff986471f95 Add the BG of a chemical reaction WeiweiAi 2022-08-02 Add double pulses for conditioning https://staging.physiomeproject.org/workspace/6bc/@@file/b9349882e91c6b0516cdab946180831851c89360 Add double pulses for conditioning WeiweiAi 2022-07-12 Output dSi in MarkovS model; https://staging.physiomeproject.org/workspace/6bc/@@file/f43cbb897309bd088d85b7d77ca07f3e37dcc8ec Output dSi in MarkovS model; when connecting inputs of the parent module to the inputs of the children, use pub interface instead of catogary WeiweiAi 2022-07-01 Add Markov states https://staging.physiomeproject.org/workspace/6bc/@@file/6dc0ec3b88004d6d2aff5ddf20061aa3cb35d7da Add Markov states WeiweiAi 2022-06-28 Add a simulation script without reset https://staging.physiomeproject.org/workspace/6bc/@@file/af1f8d8d26f3cd9f85a1de11bd50811021c52f06 Add a simulation script without reset WeiweiAi 2022-06-07 Add E_Cl and Xi_cal https://staging.physiomeproject.org/workspace/6bc/@@file/5c9a08d90f97d43c13faf09e96d62d896b2a5d2d Add E_Cl and Xi_cal WeiweiAi 2022-06-03 Make a correction https://staging.physiomeproject.org/workspace/6bc/@@file/701e8cebe4ae7dde52fcefc1ea27c2fb6b39fdee Make a correction WeiweiAi 2022-05-17 Add a merge script and update accordingly https://staging.physiomeproject.org/workspace/6bc/@@file/0f94d0bdf02afd16ebe8651a92628c98334ddb1f Add a merge script and update accordingly WeiweiAi 2022-05-16 update the readme https://staging.physiomeproject.org/workspace/6bc/@@file/1fb1954d66fe1e42d0adacab6b501180d6aef676 update the readme WeiweiAi 2022-05-04 update readme https://staging.physiomeproject.org/workspace/6bc/@@file/3e419bc30924d47e6c80ab0897f30ad09e9ff4a3 update readme WeiweiAi 2022-05-04 rewrite the modelValidation as function https://staging.physiomeproject.org/workspace/6bc/@@file/7dbe7fa767e2f7dcfe1f7a7421ae4cafeeece2a9 rewrite the modelValidation as function WeiweiAi 2022-05-04 close file after writing https://staging.physiomeproject.org/workspace/6bc/@@file/a51b8d8cc2c73ab9e6fdc37c6cd695a97cacd1d7 close file after writing WeiweiAi 2022-05-04 Seperate the setlim for plotExp.py; https://staging.physiomeproject.org/workspace/6bc/@@file/c05a1749b3003de5c15cc530b579b4671106b978 Seperate the setlim for plotExp.py; Update readme.txt WeiweiAi 2022-05-03 Add plot title https://staging.physiomeproject.org/workspace/6bc/@@file/02b30b08f977dc76540b9907cf27883a7d57dc8b Add plot title WeiweiAi 2022-05-02 Add writePara.m for documentation https://staging.physiomeproject.org/workspace/6bc/@@file/389a65e6b05f56b571eae0673c8f089214440681 Add writePara.m for documentation WeiweiAi 2022-04-28 Remove interactive labeling; https://staging.physiomeproject.org/workspace/6bc/@@file/71a79f4273ebfe232057a071766138694777ab84 Remove interactive labeling; Specify index when using intersect to avoid order errors add buildComponents.m to wrap multiple building processes; WeiweiAi 2022-04-22 Further automate the mapping process https://staging.physiomeproject.org/workspace/6bc/@@file/4f2e241af0f1dbffded70d0aa6b23e73e5f06b01 Further automate the mapping process WeiweiAi 2022-04-21 Add concentration clamp; https://staging.physiomeproject.org/workspace/6bc/@@file/4ff19c3f257b33704e3c001e62550111f4ed828a Add concentration clamp; Check interface IO when mapping; Add init in the csv to allow building a model with init: WeiweiAi 2022-04-20 Add units; pass the inputs to the children models https://staging.physiomeproject.org/workspace/6bc/@@file/19b058307b9f998bfffa80c25aa156fa64500e44 Add units; pass the inputs to the children models WeiweiAi 2022-04-20 Add readComp to create comp from the existing model file; https://staging.physiomeproject.org/workspace/6bc/@@file/0dac5431120e7f9a1629e94034b7751917919b43 Add readComp to create comp from the existing model file; correct updataVIO; modelValidation.py for validating model using cellML2.0 lib txt2cellml.psl for convert .txt files to .cellml files WeiweiAi 2022-04-14 remove alias in components; allow labeling vars pass by parameters https://staging.physiomeproject.org/workspace/6bc/@@file/2a39f3dee502df3bf8992cf16931e290b90c0b86 remove alias in components; allow labeling vars pass by parameters WeiweiAi 2022-04-14 add updateVIO.m and correct getPara.m https://staging.physiomeproject.org/workspace/6bc/@@file/91fe586a0fe054a25297169a6cc939bd3560e4ab add updateVIO.m and correct getPara.m WeiweiAi 2022-04-13 Replace writeDefault.m with getPara.m https://staging.physiomeproject.org/workspace/6bc/@@file/c9682a987f6f0cc4dfe37b93e624fb86c5d0c1fe Replace writeDefault.m with getPara.m WeiweiAi 2022-04-13 Add Matlab scripts to build cellML models https://staging.physiomeproject.org/workspace/6bc/@@file/e653d60e211e14e8a4b552af1bc280317474fe43 Add Matlab scripts to build cellML models WeiweiAi 2022-04-13 Add plot functions https://staging.physiomeproject.org/workspace/6bc/@@file/2845ff8285b871631ac52775bf868ce5127508da Add plot functions WeiweiAi 2022-03-31 tune the plot https://staging.physiomeproject.org/workspace/6bc/@@file/ab5c063dc5110d2bc68c2abbc8a6b0939c6c1ba1 tune the plot WeiweiAi 2022-03-18 Add simExp function https://staging.physiomeproject.org/workspace/6bc/@@file/fcf6cb1102d225300a8cb8f2da0bf15c8a0a314a Add simExp function WeiweiAi 2022-03-17 Move constants to the interface https://staging.physiomeproject.org/workspace/6bc/@@file/e4a1c78339a523940c1c524aa31ef4affc9ccaf8 Move constants to the interface WeiweiAi 2022-03-17 Add fmol of channels https://staging.physiomeproject.org/workspace/6bc/@@file/b27a4d52ef8f83f5a662582f1b0c3ab89b72a469 Add fmol of channels WeiweiAi 2022-03-09 Expose q in gate model; https://staging.physiomeproject.org/workspace/6bc/@@file/49aca7bf14ba8afe430410adfe7271f325e7108e Expose q in gate model; WeiweiAi 2022-03-09 expose q in C component and gate model to validate the states quantities https://staging.physiomeproject.org/workspace/6bc/@@file/d0fef299e91b00f5109c80457c21b96c6112fee6 expose q in C component and gate model to validate the states quantities WeiweiAi 2022-03-09 Put the MSE in the plot https://staging.physiomeproject.org/workspace/6bc/@@file/de662ebfc97ad4e3b605cd8470a4c0b3bf262d06 Put the MSE in the plot WeiweiAi 2022-03-08 Correct the flow equation https://staging.physiomeproject.org/workspace/6bc/@@file/8c7258d71aa1bc9a6eec298ffe07a77e8cd0821f Correct the flow equation WeiweiAi 2022-02-21 Add Se component https://staging.physiomeproject.org/workspace/6bc/@@file/53a003ba1ff8a4369a834d9a555eccf626f23417 Add Se component WeiweiAi 2022-02-16 Modify the channelX_BG to incoporate the 0 nodes; https://staging.physiomeproject.org/workspace/6bc/@@file/5e8d538138f05b359a7bc5908ea976ff4ff49ae2 Modify the channelX_BG to incoporate the 0 nodes; Correct the 0:s4 equation in the gate_n4_BG WeiweiAi 2022-02-14 Modify the units https://staging.physiomeproject.org/workspace/6bc/@@file/9915b3b7ab67814181ffc82e17a7c152d5913065 Modify the units WeiweiAi 2021-11-29 Add mA and nA https://staging.physiomeproject.org/workspace/6bc/@@file/1d2494717f1da39ce32aa1ffb518cb681ea91c1c Add mA and nA WeiweiAi 2021-11-29 Add units def https://staging.physiomeproject.org/workspace/6bc/@@file/d08cd8d277ec98ce70a4aedef456273e1946e512 Add units def WeiweiAi 2021-11-25 Add GHK calculation https://staging.physiomeproject.org/workspace/6bc/@@file/25f702702c1c129fef08faa593ddecb7a368b9d5 Add GHK calculation WeiweiAi 2021-11-23 Updae the plot function and delete the fit function. The fit function is moved to individual gate fitting process https://staging.physiomeproject.org/workspace/6bc/@@file/24f6dc8a57e8f60221d340e11ca44504cfb97758 Updae the plot function and delete the fit function. The fit function is moved to individual gate fitting process WeiweiAi 2021-11-16 Modify the option and layout of plots https://staging.physiomeproject.org/workspace/6bc/@@file/537e3bc704f362367cc841be142b6b7eaa6da9c6 Modify the option and layout of plots WeiweiAi 2021-11-15 Move figure creation outside of the function https://staging.physiomeproject.org/workspace/6bc/@@file/4c30575094ded8dd75c2af87e0f9f8c368fde0c4 Move figure creation outside of the function WeiweiAi 2021-11-15 correct the plot function https://staging.physiomeproject.org/workspace/6bc/@@file/19a84bba8e353d39457b67083980475bf9e140ed correct the plot function WeiweiAi 2021-11-15