jinko

Plugin jinko from marketplace jinko in novainsilico/jinko-skills. Commands read from the repo's manifest — 19 days ago.

Skills (24)

• jinko-calibration-cmaes

  Create, run, poll, and inspect results for Jinkō CMA-ES calibrations via the jinko-sdk: attach data tables and/or an advanced output set as fitness-function sources, set CMA-ES options and parameter priors, launch and monitor the run, and read performance/results payloads. Use whenever the user need

• jinko-calibration-subsampling

  Create, validate, run, inspect, reuse, and edit Jinkō virtual-population subsampling designs with the jinko-sdk. Use whenever a completed Trial's simulated patients must be filtered or selected to match population-level targets, then emitted as a matched Vpop. This is SDK mechanics only: do not use

• jinko-context

  Explain core Jinkō context, navigation, version management, and domain language for agents and users. Use this skill whenever the user needs a mental model of Jinkō projects, folders, project items, snapshots, references, extracts, highlights, protocols, trials, calibration, virtual populations, tra

• jinko-data-table

  Create or inspect Jinkō data tables via the jinko-sdk. Use this skill whenever the user wants to upload observed data for trial overlays or calibration objectives from CSV, SQLite, or pandas DataFrame; check data-table schema columns; inspect existing data tables; or verify metadata.public.validForF

• jinko-document

  Create or update a Jinkō document from markdown through the jinko-sdk, including headings, tables, code blocks, links to Jinkō project items, uploaded images, and links to existing Jinkō References. Use this skill whenever the user wants to turn local markdown into a Jinkō document, refresh an exist

• jinko-model

  Build or edit a Jinkō computational model (QSP/PK-PD) via the jinko-sdk: parameters, categorical parameters, compartments, species, ODEs, reactions, dosing events, algebraic rules, baseline checks, solving options, units, and component tags. Use this skill whenever the user wants to create a model f

• jinko-output-set

  Create, inspect, validate, and incrementally edit Jinkō output sets via the jinko-sdk: simple output sets (measure designs) that list scalar measures derived from model outputs, and advanced output sets (scoring designs) that define constraints, scalars, and weighted objectives for scoring virtual p

• jinko-protocol

  Design or edit multi-arm Jinkō protocol designs via the jinko-sdk. Use this skill whenever the user wants to compare doses, schedules, administration routes, treatment activation flags, or combinations of treatments by overriding model component values per arm. Protocol designs assign values to mode

• jinko-reference

  Create, inspect, download, and organize Jinkō reference PDFs and their extracts through the jinko-sdk. Use this skill whenever the user wants to upload a paper or source PDF to a Jinkō project, retrieve a reference PDF already in the project so it can be read, create textual highlights from a quoted

• jinko-sdk-setup

  Authenticate and configure access to a Jinkō project via the jinko-sdk. Use this skill whenever the user wants to connect to Jinkō, install the SDK, set up credentials or a .env file, verify API access, fail-fast check that a JINKO_API_KEY or JINKO_SESSION_CODE and JINKO_PROJECT_ID work, obtain a se

• jinko-solution-and-product-guide

  The jinko-solution-and-product-guide skill provides users with clear, concise information about solutions (services capabilities) and product features in jinko to solve the users scientific and modeling objectives. Use this skill whenever you need guidance on finding models in the library to help ge

• jinko-task-cmaes

  Execute a CMA-ES calibration from confirmed Jinkō inputs: assemble the model, protocol, output sets, fitness data tables, parameter priors, and optimizer options; create and run the Calibration; and return the supported results. Use when the user wants to perform a CMA-ES calibration, not when they

• jinko-task-define-param-to-calibrate

  Classify directly valued Jinkō model inputs by evidence source and assign inputs needing calibration to explicit calibration steps. Use when the user wants to decide which parameters, categorical parameters, or species initial conditions should be calibrated and record the decision with `s::*` and `

• jinko-task-export-to-matlab

  Export a Jinkō computational model to SimBiology, apply its exported simulation settings in MATLAB, and compare selected time series with Jinkō simple_solve results. Use this skill whenever the user wants to transfer a Jinkō model to MATLAB/SimBiology, validate an Excel-based SimBiology export again

• jinko-task-extract-data-table

  Extract or digitize reported biomedical values from papers, figures, tables, supplements, images, or web sources into traceable CSV/Markdown, optionally as a calibration-ready Jinkō data table. Use when numeric evidence must be transcribed, normalized, unit-converted, or bound to model observables.

• jinko-task-from-nonmem

  Convert a NONMEM run into a Jinkō trial set-up via the jinko-sdk. Use this skill whenever the user wants to import, translate, port or migrate a NONMEM model, control stream, .mod/.ctl/.lst file, .ext estimates, .phi individual estimates or a NONMEM data set into Jinkō, or asks to reproduce a publis

• jinko-task-ichm15-planning

  From a scientific question of interest, get recommendations on preparing and formatting the documentation related to ICHM15 planning phase, which covers ICH M15 key assessments elements, technical criteria evaluation of model and model outcomes, appropriateness of Proposed MIDD and a Model Analysis

• jinko-task-literature-search

  Find and shortlist biomedical publications from PubMed for knowledge, data, or reusable-model evidence. Use for query framing, PMID/DOI discovery, bibliographic normalization, evidence prioritization, and best-effort public full-text retrieval before synthesis, extraction, or modeling. Do not use fo

• jinko-task-paper2model

  Reconstruct a published mechanistic, QSP, PK/PD, or ODE model in Jinkō from papers, supplements, equations, diagrams, tables, and optional source code. Use whenever the requested result is an executable paper reproduction, including when no code exists or a scanned PDF needs OCR. Produces a validate

• jinko-task-trial-data-scoping

  Find and shortlist ClinicalTrials.gov registry and posted-results records for biomedical modeling evidence. Use for NCT discovery, status/phase/results screening, endpoint and population inventory, comparator landscapes, and ongoing-trial intelligence. Do not use for PubMed publication discovery, qu

• jinko-trial-viz

  Create, update, inspect, sanity-check, and retrieve Jinkō TrialVisualization project items for completed or running trials. Use this skill whenever the user wants a trial visualization, trial viz, time-series plot setup, scalar result plots, scatter plots, contribution analysis, survival analysis, d

• jinko-trial

  Create, sanity-check, run, poll, download results, and compute plot data for Jinkō in-silico trials via the jinko-sdk. Use this skill whenever the user wants to set up a trial from a computational model and simple output set, optionally attach a vpop, protocol, data table, or advanced scoring output

• jinko-vpop

  Create, generate, inspect, or work with Jinkō virtual populations (vpops) and vpop designs via the jinko-sdk. Use this skill whenever the user wants to upload a vpop from CSV or pandas DataFrame, create a vpop generator from marginal distributions, generate a vpop from a vpop design, inspect vpop co

• jinko

  Discover and route Jinkō QSP and mechanistic-modeling requests to the public Jinkō skill that owns the work. Use when the user is starting a Jinkō session, asks what capability or skill to use, describes a multi-area modeling request, or has not yet identified the relevant jinko-* or jinko-task-* sk

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