Merge stacked feature branches into main#139

Merged

ammarcsj merged 26 commits into

mainfrom

add_quant_reader_and_table_updates

May 25, 2026

Commits on May 25, 2026

Add graphviz pure-Python fallback layout for treeviz

ammarcsj
and
claude
committed
Minor fcviz cleanup

ammarcsj
and
claude
committed
Update quant reader config with new input types

ammarcsj
and
claude
committed
Update alphadia reader

ammarcsj
and
claude
committed
Add split ion backgrounds and new z-aggregation modes to background distributions
ammarcsj
committed
Add missing value clustering updates
ammarcsj
committed
Add variance predictor module and tests
ammarcsj
committed
Add intensity summarization module and tests
ammarcsj
committed
Add ICC correction module and tests
ammarcsj
committed
Add residual decorrelation module and tests
ammarcsj
committed
Update cluster utils with new aggregation modes and fragment filtering
ammarcsj
committed
Update config variables for new features
ammarcsj
committed
Wire new features into condpair analysis
ammarcsj
committed
Update run_pipeline, dashboard and PTM wiring
ammarcsj
committed
Add module docstring, structure overview and inline comments to residual_decorrelation
ammarcsj
committed
Add .claude/settings.local.json to .gitignore
ammarcsj
committed
Restore notebook plotting functions removed by dead code cleanup
ammarcsj
committed
Merge pull request #130 from MannLabs/add_background_split_and_z_aggregation
ammarcsj
authored
Merge pull request #131 from MannLabs/add_variance_predictor
ammarcsj
authored
Merge pull request #132 from MannLabs/add_intensity_summarization
ammarcsj
authored
Merge pull request #133 from MannLabs/add_icc_correction
ammarcsj
authored
Merge pull request #134 from MannLabs/add_residual_decorrelation
ammarcsj
authored
Merge pull request #135 from MannLabs/wire_new_aggregation_features
ammarcsj
authored
Merge pull request #136 from MannLabs/document_residual_decorrelation
ammarcsj
authored
Merge pull request #137 from MannLabs/fix_notebook_plotting_functions
ammarcsj
authored
Resolve merge conflict: take main's version of cluster_missingval.py
ammarcsj
committed

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Merge stacked feature branches into main#139

Merge stacked feature branches into main#139
ammarcsj merged 26 commits into
mainfrom
add_quant_reader_and_table_updates

Commits on May 25, 2026

Add graphviz pure-Python fallback layout for treeviz

Minor fcviz cleanup

Update quant reader config with new input types

Update alphadia reader

Add split ion backgrounds and new z-aggregation modes to background distributions

Add missing value clustering updates

Add variance predictor module and tests

Add intensity summarization module and tests

Add ICC correction module and tests

Add residual decorrelation module and tests

Update cluster utils with new aggregation modes and fragment filtering

Update config variables for new features

Wire new features into condpair analysis

Update run_pipeline, dashboard and PTM wiring

Add module docstring, structure overview and inline comments to residual_decorrelation

Add .claude/settings.local.json to .gitignore

Restore notebook plotting functions removed by dead code cleanup

Merge pull request #130 from MannLabs/add_background_split_and_z_aggregation

Merge pull request #131 from MannLabs/add_variance_predictor

Merge pull request #132 from MannLabs/add_intensity_summarization

Merge pull request #133 from MannLabs/add_icc_correction

Merge pull request #134 from MannLabs/add_residual_decorrelation

Merge pull request #135 from MannLabs/wire_new_aggregation_features

Merge pull request #136 from MannLabs/document_residual_decorrelation

Merge pull request #137 from MannLabs/fix_notebook_plotting_functions

Resolve merge conflict: take main's version of cluster_missingval.py