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Installation
Tutorials
Quickstart
Interpreting Latent Gene Space
Hyperparameter Tuning
GPU Training with Sinkhorn
Computational Speed-ups
GGML Method Overview
API
Core functions:
ggml_ot
ggml_ot.train
ggml_ot.train_emd2
ggml_ot.train_sinkhorn
ggml_ot.tune
ggml_ot.test
ggml_ot.train_test
ggml_ot.from_anndata
ggml_ot.from_numpy
Dataset classes:
.data
ggml_ot.data.AnnData_TripletDataset
ggml_ot.data.TripletDataset
ggml_ot.data.load_cellxgene
ggml_ot.data.from_synth
ggml_ot.data.from_synth_gmm
Plotting:
.pl
ggml_ot.pl.clustermap
ggml_ot.pl.embedding
ggml_ot.pl.clustermap_embedding
ggml_ot.pl.table
ggml_ot.pl.confusion_matrix
ggml_ot.pl.contour_hyperparams
ggml_ot.pl.scatter_subspace
ggml_ot.pl.scatter_3d
ggml_ot.pl.ellipse_overlay
ggml_ot.pl.panel_subspaces
ggml_ot.pl.plot_gmm_panel
ggml_ot.pl.panel_synth_dataset
Analysis tools:
.gene
ggml_ot.gene.ranking
ggml_ot.gene.enrichment
ggml_ot.gene.top_ranked
Settings:
.settings
ggml_ot.settings
GMM API:
.gmm
ggml_ot.train_gmm
ggml_ot.gmm.fit_gmm
Contributor’s Guide
Issues and Planning
Development Setup
Documentation
Testing
Pull Requests & Releases
References
.rst
.pdf
Settings: .settings
Contents
Settings object
Settings:
.settings
#
Settings object
#
settings
Container for global settings of ggml_ot.
Contents
Settings object
