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ggml-ot 0.9.92 documentation - Home ggml-ot 0.9.92 documentation - Home
  • 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

Index

_ | A | C | E | F | G | L | M | P | R | S | T

_

  • __init__() (ggml_ot.data.AnnData_TripletDataset method)
    • (ggml_ot.data.TripletDataset method)

A

  • AnnData_TripletDataset (class in ggml_ot.data)

C

  • clustermap() (in module ggml_ot.pl)
  • clustermap_embedding() (in module ggml_ot.pl)
  • confusion_matrix() (in module ggml_ot.pl)
  • contour_hyperparams() (in module ggml_ot.pl)

E

  • ellipse_overlay() (in module ggml_ot.pl)
  • embedding() (in module ggml_ot.pl)
  • enrichment() (in module ggml_ot.gene)

F

  • fit_gmm() (in module ggml_ot.gmm)
  • from_anndata() (in module ggml_ot)
  • from_numpy() (in module ggml_ot)
  • from_synth() (in module ggml_ot.data)
  • from_synth_gmm() (in module ggml_ot.data)

G

  • ggml_ot
    • module
  • ggml_ot.data
    • module
  • ggml_ot.gene
    • module
  • ggml_ot.pl
    • module

L

  • load_cellxgene() (in module ggml_ot.data)

M

  • module
    • ggml_ot
    • ggml_ot.data
    • ggml_ot.gene
    • ggml_ot.pl

P

  • panel_subspaces() (in module ggml_ot.pl)
  • panel_synth_dataset() (in module ggml_ot.pl)
  • plot_gmm_panel() (in module ggml_ot.pl)

R

  • ranking() (in module ggml_ot.gene)

S

  • scatter_3d() (in module ggml_ot.pl)
  • scatter_subspace() (in module ggml_ot.pl)
  • settings (in module ggml_ot)

T

  • table() (in module ggml_ot.pl)
  • test() (in module ggml_ot)
  • top_ranked() (in module ggml_ot.gene)
  • train() (in module ggml_ot)
  • train_emd2() (in module ggml_ot)
  • train_gmm() (in module ggml_ot)
  • train_sinkhorn() (in module ggml_ot)
  • train_test() (in module ggml_ot)
  • TripletDataset (class in ggml_ot.data)
  • tune() (in module ggml_ot)

By Damin Kuehn