This page displays information for the following dataset:

Name:

 mouse_brain_atac_peaks_small

Description:

 Small mouse brain (peaks)

Type:

 ATAC (peaks)

Cells:

 11597

Batches:

 3

Labels:

 7

1 Overall

1.1 Plot

1.2 Table

2 Individual metrics

2.1 Overall

2.2 Batch correction

Batch correction

PCR batch

Batch ASW

Graph iLISI

Graph connectivity

kBET

2.3 Bio conservation

Bio conservation

NMI cluster/label

ARI cluster/label

Label ASW

Isolated label F1

Isolated label silhouette

Graph cLISI

HVG conservation

Cell cycle conservation

Trajectory conservation

3 Embeddings

Method (Output)

BBKNN (Graph)

Input features (Scaling)

Full (Unscaled)

LIGER (Embedding)

Input features (Scaling)

Full (Unscaled)

Seurat v3 RPCA (Features)

Input features (Scaling)

Full (Unscaled)

scVI (Embedding)

Input features (Scaling)

Full (Unscaled)

scANVI* (Embedding)

Input features (Scaling)

Full (Unscaled)

FastMNN (Embedding)

Input features (Scaling)

Full (Unscaled)

Harmony (Embedding)

Input features (Scaling)

Full (Unscaled)

scGen* (Features)

Input features (Scaling)

Full (Unscaled)

Unintegrated (Features)

Input features (Scaling)

Full (Unscaled)

ComBat (Features)

Input features (Scaling)

Full (Unscaled)

FastMNN (Features)

Input features (Scaling)

Full (Unscaled)

Scanorama (Embedding)

Input features (Scaling)

Full (Unscaled)

Seurat v3 CCA (Features)

Input features (Scaling)

Full (Unscaled)

Scanorama (Features)

Input features (Scaling)

Full (Unscaled)

trVAE (Embedding)

Input features (Scaling)

Full (Unscaled)

MNN (Features)

Input features (Scaling)

Full (Unscaled)

SAUCIE (Features)

Input features (Scaling)

Full (Unscaled)

SAUCIE (Embedding)

Input features (Scaling)

Full (Unscaled)

DESC (Embedding)

Input features (Scaling)

Full (Unscaled)

Conos (Graph)

Input features (Scaling)

Full (Unscaled)

4 Scalability

4.1 Time

4.2 Memory