Immune (by batch)

Human immune cells from peripheral blood and bone marrow taken from 5 datasets comprising 10 batches across technologies (10X, Smart-seq2).

Immune (by batch)

Rank	NMI	Isolated label F1	ARI	Graph connectivity	Memory (GB)	Runtime (min)	CPU (%)	Name	Code	Year
36	0.56	0.54	0.40	0.85	5.50	2.55	637.50	Harmony (full/unscaled)	v0.1.7	2019
35	0.53	0.58	0.42	0.85	5.20	2.95	312.00	Harmony (hvg/unscaled)	v0.1.7	2019
30	0.60	0.72	0.42	0.95	7.80	4.00	318.40	Combat (hvg/unscaled)	v1.9.1	2007
29	0.65	0.47	0.58	0.92	6.10	2.60	466.10	Harmony (hvg/scaled)	v0.1.7	2019
37	0.43	0.33	0.25	0.94	5.30	2.02	281.20	BBKNN (hvg/unscaled)	v1.5.1	2020
31	0.56	0.27	0.43	0.98	6.10	2.22	235.00	BBKNN (hvg/scaled)	v1.5.1	2020
9	0.68	0.79	0.49	0.97	8.70	3.48	431.70	Combat (hvg/scaled)	v1.9.1	2007
25	0.60	0.50	0.53	0.96	13.50	2.75	960.00	Harmony (full/scaled)	v0.1.7	2019
34	0.53	0.31	0.31	0.98	13.50	2.18	1,471.80	BBKNN (full/scaled)	v1.5.1	2020
38	0.47	0.32	0.27	0.91	8.90	1.63	1,550.10	BBKNN (full/unscaled)	v1.5.1	2020
22	0.66	0.68	0.49	0.95	12.20	4.68	249.10	FastMNN feature (hvg/unscaled)	v1.12.3	2019
6	0.76	0.75	0.72	0.97	12.00	6.43	922.60	Scanorama (hvg/scaled)	v1.7.2	2019
8	0.69	0.82	0.62	0.94	12.00	5.68	1,087.70	Scanorama gene output (hvg/scaled)	v1.7.2	2019
16	0.66	0.68	0.49	0.95	12.40	5.47	388.10	FastMNN feature (hvg/scaled)	v1.12.3	2019
33	0.61	0.56	0.44	0.95	21.10	5.48	295.20	Combat (full/unscaled)	v1.9.1	2007
17	0.66	0.68	0.50	0.95	9.00	3.83	103.80	FastMNN embed (hvg/scaled)	v1.12.3	2019
21	0.62	0.71	0.47	0.96	24.70	6.57	548.40	Combat (full/scaled)	v1.9.1	2007
19	0.66	0.67	0.49	0.95	9.00	5.92	100.20	FastMNN embed (hvg/unscaled)	v1.12.3	2019
23	0.67	0.60	0.50	0.95	11.50	5.23	912.70	Scanorama (hvg/unscaled)	v1.7.2	2019
12	0.67	0.60	0.52	0.95	11.50	6.03	873.80	Scanorama gene output (hvg/unscaled)	v1.7.2	2019
20	0.67	0.66	0.49	0.95	27.10	13.32	105.60	FastMNN embed (full/scaled)	v1.12.3	2019
4	0.79	0.77	0.76	0.98	72.30	32.98	573.50	MNN (hvg/scaled)	v0.1.9.5	2018
13	0.67	0.68	0.50	0.95	23.60	11.55	103.90	FastMNN embed (full/unscaled)	v1.12.3	2019
18	0.70	0.58	0.57	0.88	8.60	58.20	103.50	Liger (hvg/unscaled)	v0.5.0.9000	2019
7	0.76	0.69	0.70	0.97	44.30	23.40	1,471.00	Scanorama (full/scaled)	v1.7.2	2019
10	0.68	0.63	0.53	0.96	41.20	15.63	1,861.10	Scanorama (full/unscaled)	v1.7.2	2019
14	0.66	0.85	0.54	0.90	44.20	30.87	967.30	Scanorama gene output (full/scaled)	v1.7.2	2019
11	0.67	0.62	0.57	0.96	41.10	20.80	1,219.20	Scanorama gene output (full/unscaled)	v1.7.2	2019
28	0.63	0.65	0.51	0.92	36.80	24.08	163.30	FastMNN feature (full/scaled)	v1.12.3	2019
27	0.67	0.56	0.49	0.94	679.10	63.57	2,228.40	MNN (full/unscaled)	v0.1.9.5	2018
5	0.81	0.69	0.82	0.98	7.90	153.87	1,272.50	scVI (full/unscaled)	v0.17.1	2018
15	0.65	0.76	0.56	0.94	33.40	18.03	181.70	FastMNN feature (full/unscaled)	v1.12.3	2019
3	0.82	0.76	0.84	0.99	6.30	178.93	896.40	scVI (hvg/unscaled)	v0.17.1	2018
1	0.85	0.86	0.89	0.99	7.60	175.10	908.10	scANVI (hvg/unscaled)	v0.17.1	2021
26	0.67	0.53	0.51	0.94	134.10	12.32	1,404.10	MNN (hvg/unscaled)	v0.1.9.5	2018
32	0.66	0.49	0.51	0.89	22.10	207.38	100.60	Liger (full/unscaled)	v0.5.0.9000	2019
24	0.65	0.74	0.49	0.95	514.20	71.65	2,155.30	MNN (full/scaled)	v0.1.9.5	2018
2	0.83	0.82	0.87	0.98	10.00	87.23	1,586.80	scANVI (full/unscaled)	v0.17.2	2021