| A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Y | Z | AA | AB | AC | |
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1 | Metadata element | Description | Example | Value | Value 2 | Value 3 | Extend as needed | ||||||||||||||||||||||
2 | RRID Term | Tools or resources used as part of the model, simulation, or data processing (henceforth referred to as project) | OpenCOR | Simulink | MATLAB | o²S²PARC | |||||||||||||||||||||||
3 | RRID Identifier | Resources identifier (with 'RRID:') associated with the project submission and its tools and resources | RRID:SCR_019001 | RRID:SCR_014744 | RRID:SCR_001622 | RRID:SCR_018997 | |||||||||||||||||||||||
4 | Ontology Term | Ontology term (human-readable) associated with the project submission | Heart | baroreceptor feedback control of blood pressure | intrinsic cardiac nervous system | vagus nerve stimulation | |||||||||||||||||||||||
5 | Ontology Identifier | Associated ontology identifier from SciCrunch | UBERON:0000945 | GO:0001978 | N/A | ILX:0428559 | |||||||||||||||||||||||
6 | Ten Simple Rules (TSR) | See TSR conformance for a definition of the Levels | Example | ||||||||||||||||||||||||||
7 | TSR Column Type | Column type. Valid values are: Link, Text, Rating, Target, Target Justification | Link | Link | Link | Rating | Target | Target Justification | Text | ||||||||||||||||||||
8 | TSR1: Clearly Defined Context | Description of use cases for the project. | https://doi.org/10.1088/1741-2552/ad1610 | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | Comprehensive | ||||||||||||||||||||||||
9 | TSR2: Use of Appropriate Data | Links to data that was used to create, validate, test, etc. the project. | https://doi.org/10.1088/1741-2552/ad1610 | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | Extensive | ||||||||||||||||||||||||
10 | TSR3a: Verification | Link to test suite for project. | https://github.com/ITISFoundation/openCOR-viewer/blob/main/.github/workflows/check-image.yml | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | https://github.com/ITISFoundation/CardiovascularControl-DBI/blob/main/.github/workflows/build-test-publish.yml | Extensive | |||||||||||||||||||||||
11 | TSR3b: Verification Results | Link to test results from running the tests for the project, e.g., on the o²S²PARC platform | https://github.com/ITISFoundation/openCOR-viewer/actions | https://github.com/ITISFoundation/CardiovascularControl-DBI/actions https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | All TSR3 items are covered by the rating on the TSR3a row | |||||||||||||||||||||||
12 | TSR3c: Evaluation Within Context | Link to scientific validation (experimental comparator), sensitivity analysis and uncertainty quantification for the project in the context of the use cases described in TSR1. | https://doi.org/10.1088/1741-2552/ad1610 | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | |||||||||||||||||||||||||
13 | TSR4: Explicitly Listed Limitations | Link to documentation of known issues and limitations of the project. | https://doi.org/10.1088/1741-2552/ad1610 | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | Comprehensive | ||||||||||||||||||||||||
14 | TSR5: Version Control | Link to primary forge repository for the project. For example, o²S²PARC, github, or gitlab instance. | https://models.physiomeproject.org/workspace/b01 | https://github.com/Daniel-Baugh-Institute/CardiovascularControl/tree/main/v03 https://osparc.io/study/65a52908-1b13-11ee-9cd1-02420a0b1bed | https://osparc.io/study/65a52908-1b13-11ee-9cd1-02420a0b1bed | Extensive | |||||||||||||||||||||||
15 | TSR6: Adequate Documentation | Link to user and/or developer documentation for the project. | https://doi.org/10.6084/m9.figshare.23624622 | https://github.com/Daniel-Baugh-Institute/CardiovascularControl/tree/main/v03#readme https://doi.org/10.26275/wabs-qul8 | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | Comprehensive | |||||||||||||||||||||||
16 | TSR7a: Broad Dissemination: Releases | Link to the download or release page for the project, e.g., on the SPARC Portal. | https://models.physiomeproject.org/workspace/b01/@@shortlog | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | Extensive | ||||||||||||||||||||||||
17 | TSR7b: Broad Dissemination: Issues | Link to project issue tracker. | https://models.physiomeproject.org/e/611 | https://github.com/Daniel-Baugh-Institute/CardiovascularControl/issues | All TSR7 items are covered by the rating on the TSR7a row | ||||||||||||||||||||||||
18 | TSR7c: Broad Dissemination: License | Link to project license. | https://www.gnu.org/licenses/gpl-3.0.html | ||||||||||||||||||||||||||
19 | TSR7d: Broad Dissemination: Packages | Link to language ecosystem package repository. For example, PyPI for python projects. | https://models.physiomeproject.org/workspace/b01 | ||||||||||||||||||||||||||
20 | TSR7e: Broad Dissemination: Interactive | Link to the project on an interactive software hosting platform e.g. o²S²PARC | https://osparc.io/study/1170826c-9a64-11ee-8b3c-02420a0b1983 | https://osparc.io/study/65a52908-1b13-11ee-9cd1-02420a0b1bed | |||||||||||||||||||||||||
21 | TSR8a: Independent Reviews | Links to reviews of project by independent members of the community. | https://doi.org/10.1088/1741-2552/ad1610 | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | Extensive | ||||||||||||||||||||||||
22 | TSR8b: External Certification | Link to external certification of project. | All TSR8 items are covered by the rating on the TSR8a row | ||||||||||||||||||||||||||
23 | TSR9: Competing Implementation Testing | Link to benchmarking against other projects operating in the same domain. | https://doi.org/10.1088/1741-2552/ad1610 | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | Adequate | ||||||||||||||||||||||||
24 | TSR10a: Relevant standards | List and/or link to standards/guidelines that this project conforms to or implements. | https://www.imagwiki.nibib.nih.gov/content/10-simple-rules-conformance-rubric | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | https://doi.org/10.1186/s12967-020-02540-4 | Adequate | |||||||||||||||||||||||
25 | TSR10b: Standards Adherence | Link to demonstration that project conforms to standard. | https://aiche.onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Faic.18033&file=aic18033-sup-0001-Supinfo.pdf | All TSR10 items are covered by the rating on the TSR10a row | |||||||||||||||||||||||||
26 | Input/Output Information | Description | Example | Value | Value 2 | Value 3 | Extend as needed | ||||||||||||||||||||||
27 | Number of Inputs | In o²S²PARC, "number of inputs" is equivalent to the number of parameterized input ports (i.e., service ports in the pipeline with attached 'Parameter' nodes). For custom code, number of inputs is the number of input parameters for the code. E.g. [out1, out2]=mymodel(param1, param2, param3) has 3 inputs even if a single parameter is a matrix of multiple values. | 1 | 2 | |||||||||||||||||||||||||
28 | Input Parameter name | Name of the parameter | Inhibitory stimulation | VNS aff. frequency | VNS eff. frequency | ||||||||||||||||||||||||
29 | Input Parameter type | Type (bool, int/enum, real, complex/phasor, vector, array, table, field, structure, file, other) | Real | real | real | ||||||||||||||||||||||||
30 | Input Parameter description | Description of what the parameter represents | Frequency of electrical field stimulation between 0 and 10 Hz for inhibitory nitrergic and purinergic stimulation, | Vagus Nerve Stimulation Afferent Frequency | Vagus Nerve Stimulation Efferent Frequency | ||||||||||||||||||||||||
31 | Input Units | string or 'N/A' | Hz | Hertz | Hertz | ||||||||||||||||||||||||
32 | Input Default value | Default value for the parameter | 4 | 0.5 | 1 | ||||||||||||||||||||||||
33 | Input Constraints | Range [min, max] of acceptable parameter values, or other constraints as formulas / sets | [0, 10] | ||||||||||||||||||||||||||
34 | Number of Outputs | In o²S²PARC, "number of outputs" is equivalent to number of output ports with attached 'Probes'. For custom code, number of inputs is the number of input parameters for the code. E.g. [out1, out2]=mymodel(param1, param2, param3) has 2 outputs even if a single output is a matrix of multiple values. | 1 | 3 | |||||||||||||||||||||||||
35 | Output Parameter name | Name of the parameter | Tension | Arterial Pressure | Elastance | RR intervals | |||||||||||||||||||||||
36 | Output Parameter type | Type (bool, int/enum, real, complex/phasor, vector, time series, array, table, field, structure, file, other) | Time series | time series | time series | time series | |||||||||||||||||||||||
37 | Output Parameter description | Description of what the parameter represents | Active gastric tension | 2-columns array representing the evolution of arterial pressure in time | 2-columns array representing the time evolution of left ventricular elastance | 2-columns array representing the time evolution of RR intervals (inverse of the heart rate) | |||||||||||||||||||||||
38 | Output Units | string or 'N/A' | kPA | mm Hg | mm Hg / mL | seconds | |||||||||||||||||||||||
39 | Output Constraints | Range [min, max] of possible output values, or other constraints as formulas / sets | |||||||||||||||||||||||||||
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