EpistasisLab/tpot2

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⚠️ DEPRECATED. The work in this repository was merged into the main TPOT project as version 1.0. Please visit the active repository here: https://github.com/EpistasisLab/tpot/tree/main A Python Automated Machine Learning tool that optimizes machine learning pipelines using genetic programming.

Stars: 250
Forks: 33
Open beginner issues: 0
Indexed issues: 52

Dominant language: Jupyter Notebook
License: LGPL-3.0
Last GitHub push: Feb 4, 2025
Latest indexed: Sep 15, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed
PR merge metrics: No merged PRs in 30d

Open All

52 open issues indexed

Benchmarks available? Open

question

EpistasisLab/tpot2#3 · 3 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Population class logging is inefficient and needs to be optimized. Open

bug enhancement

EpistasisLab/tpot2#55 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 15, 2026
TPOT1 Feature Parity: add "sample_weight" and "groups" parameters to the fit function in TPOTEstimator and the graphpipeline Open

enhancement

EpistasisLab/tpot2#57 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
TPOT1 Feature Parity: Write an export function that takes a graphpipeline and generates a .py file similar to TPOT1 Open

enhancement

EpistasisLab/tpot2#58 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Fix miscellaneous invalid hyperparameter options in the configuration dictionary. And add n_jobs=1 when possible. Open

bug

EpistasisLab/tpot2#59 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Support custom initializations / manually defined initial pipelines - Open

enhancement

EpistasisLab/tpot2#61 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
better plotting for graph pipeline Open

enhancement

EpistasisLab/tpot2#62 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
function that generates a learning curve Open

enhancement

EpistasisLab/tpot2#63 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
add a debugging tutorial Open

enhancement

EpistasisLab/tpot2#64 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Avoid duplicate work for steady state and base evolvers. Have one evolver that can do both generational EA, but also allow for extra individuals to be generated on the fly to make use of idle cores. Open

enhancement

EpistasisLab/tpot2#65 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Add successive halving algorithm to steady state Open

enhancement

EpistasisLab/tpot2#66 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
add covariate adjustment Open

enhancement

EpistasisLab/tpot2#68 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Make the cv early stop functions into standalone functions? Or remove? Open

API enhancement question

EpistasisLab/tpot2#69 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 15, 2026
FeatureSetSelector module needs to implement a mask to be consistent with sklearn Open

bug

EpistasisLab/tpot2#71 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
better thread efficiency for cv prunning with thresholds Open

enhancement

EpistasisLab/tpot2#72 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Avoiding repeated work : Cache node models with node hashing or manually. Open

enhancement

EpistasisLab/tpot2#73 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Memory caching with GraphPipeline may miss some nodes where the ordering on inputs happens to be different between two nodes. - potential solution is to make graphs canonical - there is a C package that can be imported into TPOT that may do this Open

enhancement

EpistasisLab/tpot2#74 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
replace instances of get_pareto_front with get_pareto_frontier Open

enhancement

EpistasisLab/tpot2#75 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
edit/consolidate default configuration dictionary Open

enhancement

EpistasisLab/tpot2#76 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Licensing text in source files Open

documentation question

EpistasisLab/tpot2#77 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Can we improve the configuration files to be easier to read and write? Open

API question

EpistasisLab/tpot2#78 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
rename baseevolver.optimize to .evolve? To avoid confusion with individual.optimize Open

API enhancement question

EpistasisLab/tpot2#79 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
add in unit tests Open

to test

EpistasisLab/tpot2#80 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Test that TPOTEstimator, TPOTClassifier, TPOTRegressor have a) same params, b) meet the sklearn baseestimator conventions Open

to test

EpistasisLab/tpot2#81 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 15, 2026
shuffle cv folds every generation? Open

enhancement question

EpistasisLab/tpot2#82 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
add a scorer that counts selected number of features Open

enhancement

EpistasisLab/tpot2#83 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Idea: Preventing getting stuck with variable number of mutations Open

enhancement question

EpistasisLab/tpot2#84 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Idea for Successive Halving to avoid repeated re-evaluations of the same pipeline. Open

enhancement

EpistasisLab/tpot2#85 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
API : improve selector module organization Open

API

EpistasisLab/tpot2#87 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Automatically generate names for lambda/partial functions used as custom objective functions Open

API enhancement

EpistasisLab/tpot2#88 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Rename survival_percentage to something clearer. Open

API enhancement

EpistasisLab/tpot2#89 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Better integrate Optuna Optimization Open

enhancement

EpistasisLab/tpot2#90 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Implement Meta Learner Open

enhancement

EpistasisLab/tpot2#91 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Add option for successive halving based on time or convergence rather than number of generations. Open

enhancement

EpistasisLab/tpot2#92 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
This issue for TPOT1 brought up a good idea about outlier detection https://github.com/EpistasisLab/tpot/issues/1166 Open

enhancement

EpistasisLab/tpot2#93 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
add support for regressors in the complexity objective function Open

enhancement

EpistasisLab/tpot2#94 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
optimization of preprocessing pipeline Open

enhancement

EpistasisLab/tpot2#95 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Genetic Feature Selection Improvements Open

enhancement

EpistasisLab/tpot2#96 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Add support for ordinal categorical columns Open

enhancement

EpistasisLab/tpot2#98 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
implement a callback function/class Open

enhancement

EpistasisLab/tpot2#99 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Idea for a two step preprocessing pipeline Open

enhancement

EpistasisLab/tpot2#100 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
TPOT1 feature Parity: cuML configuration dictionaries Open

enhancement

EpistasisLab/tpot2#101 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Replace remaining calls to legacy `np.random.seed()` Open

bug enhancement

EpistasisLab/tpot2#112 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 15, 2026
Remove jupyter as a dependency (+maybe others) Open

EpistasisLab/tpot2#146 · 4 comments · 0 reactions · 1 assignee · Indexed Sep 15, 2026
Should 'classification=True' be 'classification=self.classification'? Open

EpistasisLab/tpot2#150 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 15, 2026
Forgot to instantiate the rng. Open

EpistasisLab/tpot2#151 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 15, 2026
'np.random.normal(0, 1)' should be 'rng.normal(0, 1)' Open

EpistasisLab/tpot2#152 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 15, 2026
#TODO, mutate all steps or just one? Open

EpistasisLab/tpot2#154 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
Public API / documentation for # generations executed Open

EpistasisLab/tpot2#161 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 15, 2026
tpot2.builtin_modules.ColumnOneHotEncoder do not define 'strategy' Open

EpistasisLab/tpot2#163 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 15, 2026

EpistasisLab/tpot2

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