flo-schu pymob issues - Githubissues

flo-schu / pymob

Python model building platform

MIT License

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Revise case study loading

#101 flo-schu opened 2 weeks ago
0
Documentation for hierarchical modelling

#100 flo-schu opened 2 weeks ago
0
Create a generator for empty observations and indices given an experimental design, accoding to the define_observations_... methods. In the Hierarchical Lotka-Volterra case study

#99 flo-schu opened 2 weeks ago
1
Documentation: Parameter specification, parameter mapping, indexing

#98 flo-schu opened 2 weeks ago
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Improve batch dimension handling

#97 flo-schu opened 2 weeks ago
1
Hierarchical modelling tasks

#96 flo-schu opened 2 weeks ago
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Implement logging

#95 flo-schu opened 2 weeks ago
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Take `tktd_rna_pulse` case study under behavioral testing

#94 flo-schu opened 2 weeks ago
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Map a parameter to specified dimension

#93 flo-schu opened 2 weeks ago
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Refactor: Harmonize coordinate handling

#92 flo-schu opened 2 weeks ago
1
Add indices and dims to inference model as keyword arguments in numpyro backend

#91 flo-schu opened 2 weeks ago
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Take documentation and teaching notebooks under testing and automated building for release

#90 flo-schu opened 1 month ago
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in parameter implement parameter bounds on logscale

#89 flo-schu opened 1 month ago
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Generate a print output table for the model parameters

#88 flo-schu opened 1 month ago
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Add and Error module for informative error messages

#87 flo-schu opened 1 month ago
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Config API and scripting API are not really interoperable if `__init__(self, ...)` is used

#86 flo-schu opened 1 month ago
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Process batch dimension in Evaluator.results instead of in JaxSolver

#85 flo-schu opened 1 month ago
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Implement automatic backtransformations for observations in the error_model (set obs_inv with sympy)

#84 flo-schu opened 1 month ago
1
Write documentation and example for stacking case studies, like in the hierarchical ode model

#83 flo-schu opened 1 month ago
0
Implement infrastructure and tools for hierarchical modeling

#82 flo-schu opened 3 months ago
4
Implement an experimental symbolic solver class for solving simple ODE models analytically and providing the solution as latex and python code

#81 flo-schu closed 3 months ago
0
Add tktd_rna_pulse as a case-study example to pymob

#80 flo-schu closed 4 months ago
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Move xarray solver handling to a separate repository

#79 flo-schu opened 4 months ago
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API Change: Evaluator dispatch, Feature: allow variable dimensional x_in and y0

#78 flo-schu closed 4 months ago
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Test inference with different solvers

#77 flo-schu opened 4 months ago
0
Data variables can have their own dimensional order, but the observations can only have one dimensional order.

#76 flo-schu opened 4 months ago
1
Implement loglikelihood and gradient checkers for numpyro

#75 flo-schu closed 4 months ago
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bump version 0.4.0a1 -> 0.4.0

#74 flo-schu closed 4 months ago
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implement more flexible control over data dimensionality

#73 flo-schu closed 4 months ago
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Release 0.4.0

#72 flo-schu closed 4 months ago
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Simplify parameterize/dispatch method

#71 flo-schu opened 4 months ago
2
Catch jax errors and give useful error messages

#70 flo-schu opened 4 months ago
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Define custom distributions

#69 flo-schu opened 5 months ago
1
Refactor free_model_parameters

#68 flo-schu closed 4 months ago
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Implement scripting API for bufferGUTS

#67 flo-schu closed 4 months ago
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Implement a minimal simulation test

#66 flo-schu closed 4 months ago
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Write descriptions into config file at export, in order to create self documented configuration files

#65 flo-schu opened 5 months ago
0
Write quickstart doucmentation for scripting API

#64 flo-schu closed 4 months ago
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Add additional fixtures for different Simulation setup APIs

#63 flo-schu closed 5 months ago
0
10 write tests for the api

#62 flo-schu closed 5 months ago
0
Write documentation for scripting API

#61 flo-schu closed 4 months ago
1
Add pre-commit checks

#60 flo-schu opened 5 months ago
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Improve data structure of config files

#59 flo-schu opened 5 months ago
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Add parameter anaylsis to pymob

#58 flo-schu closed 5 months ago
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Add a convenience method to traverse to the case studies directory fr…

#57 flo-schu closed 6 months ago
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Implement SBML I/O methods.

#56 flo-schu opened 6 months ago
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Implement SBI

#55 flo-schu opened 6 months ago
0
Deploy documentation

#54 flo-schu closed 6 months ago
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Merge dev into main for release 0.3.0

#53 flo-schu closed 6 months ago
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Write github test for the minimal installation without extra dependencies.

#52 flo-schu opened 7 months ago
0