Skip to main content
Ctrl+K

ocelli 1.0.0 documentation

Documentation

  • Installation
  • API
    • ocelli.read.h5ad
    • ocelli.pp.neighbors
    • ocelli.pp.lda
    • ocelli.pp.generate_modalities
    • ocelli.tl.modality_weights
    • ocelli.tl.scale_weights
    • ocelli.tl.MDM
    • ocelli.tl.imputation
    • ocelli.tl.neighbors_graph
    • ocelli.tl.transitions_graph
    • ocelli.tl.fa2
    • ocelli.tl.umap
    • ocelli.tl.zscores
    • ocelli.tl.louvain
    • ocelli.tl.projection
    • ocelli.pl.scatter
    • ocelli.pl.scatter_interactive
    • ocelli.pl.violin
    • ocelli.pl.bar
    • ocelli.pl.projections

Tutorials

  • Welcome to Ocelli!
  • Tutorial 2: Hair follicle profiled with SHARE-seq (ATAC-seq + RNA-seq)
  • Tutorial 3: Diffusion-based multimodal imputation
  • Tutorial 4: BMMCs profiled with ASAP-seq (ATAC-seq + Protein Epitopes)
  • Tutorial 5: Diffusion-based multimodal exploration of subtrajectories
  • Tutorial 6: BMMCs profiled with NTT-seq (H3K27ac + H3K27me3)
  • Tutorial 7: Exploring unimodal data (RNA-seq)

Index

B | F | G | H | I | L | M | N | P | S | T | U | V | Z

B

  • bar() (in module ocelli.pl)

F

  • fa2() (in module ocelli.tl)

G

  • generate_modalities() (in module ocelli.pp)

H

  • h5ad() (in module ocelli.read)

I

  • imputation() (in module ocelli.tl)

L

  • lda() (in module ocelli.pp)
  • louvain() (in module ocelli.tl)

M

  • MDM() (in module ocelli.tl)
  • modality_weights() (in module ocelli.tl)

N

  • neighbors() (in module ocelli.pp)
  • neighbors_graph() (in module ocelli.tl)

P

  • projection() (in module ocelli.tl)
  • projections() (in module ocelli.pl)

S

  • scale_weights() (in module ocelli.tl)
  • scatter() (in module ocelli.pl)
  • scatter_interactive() (in module ocelli.pl)

T

  • transitions_graph() (in module ocelli.tl)

U

  • umap() (in module ocelli.tl)

V

  • violin() (in module ocelli.pl)

Z

  • zscores() (in module ocelli.tl)

By Piotr Rutkowski

© Copyright 2025, Piotr Rutkowski.