Immune (by batch)

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

Raw Scaled

Rank	Name	Mean score	ARI	ARI	Graph connectivity	Graph connectivity	Isolated label F1	Isolated label F1	NMI	NMI	Memory (GB)	Runtime (min)	CPU (%)	Year	Library
1	scANVI (hvg/unscaled)	0.89	0.88	0.88	0.98	0.98	0.86	0.85	0.85	0.85	13.90	47.77	2,350.20	2021	v0.20.0
2	scANVI (full/unscaled)	0.87	0.88	0.88	0.99	0.98	0.77	0.76	0.84	0.84	5.80	54.92	2,684.10	2021	v0.20.0
3	scVI (hvg/unscaled)	0.86	0.82	0.82	0.99	0.98	0.84	0.83	0.80	0.80	11.80	44.32	2,370.50	2018	v0.20.0
4	Scanorama (hvg/scaled)	0.86	0.79	0.79	0.98	0.97	0.85	0.84	0.82	0.82	8.10	14.88	475.90	2019	v1.7
5	MNN (hvg/scaled)	0.85	0.78	0.78	0.98	0.97	0.85	0.85	0.81	0.81	37.00	19.33	1,039.10	2018	v0.1.9.5
6	scVI (full/unscaled)	0.84	0.79	0.79	0.98	0.98	0.82	0.81	0.79	0.79	3.40	49.50	2,697.30	2018	v0.20.0
7	MNN (full/unscaled)	0.84	0.75	0.75	0.98	0.98	0.84	0.83	0.81	0.81	376.90	45.77	4,831.20	2018	v0.1.9.5
8	Scanorama (full/scaled)	0.84	0.74	0.74	0.99	0.99	0.85	0.84	0.80	0.79	42.70	25.98	1,330.60	2019	v1.7
9	Scanorama gene output (hvg/scaled)	0.84	0.81	0.81	0.94	0.93	0.83	0.83	0.80	0.80	8.20	18.17	448.40	2019	v1.7
10	Scanorama (hvg/unscaled)	0.83	0.78	0.78	0.91	0.90	0.82	0.81	0.83	0.83	7.60	12.50	529.40	2019	v1.7
11	MNN (hvg/unscaled)	0.83	0.70	0.70	0.99	0.99	0.83	0.83	0.79	0.79	35.70	13.75	1,500.60	2018	v0.1.9.5
12	MNN (full/scaled)	0.82	0.72	0.72	0.97	0.96	0.84	0.83	0.78	0.78	601.00	105.53	1,516.50	2018	v0.1.9.5
13	Combat (full/unscaled)	0.81	0.75	0.75	0.94	0.93	0.79	0.78	0.79	0.79	17.60	7.92	507.80	2007	v1.9.1
14	Scanorama gene output (hvg/unscaled)	0.81	0.73	0.73	0.91	0.89	0.84	0.84	0.78	0.78	7.50	15.05	502.50	2019	v1.7
15	FastMNN embed (hvg/unscaled)	0.80	0.75	0.75	0.96	0.96	0.74	0.73	0.79	0.79	3.40	5.40	84.60	2019	v1.14.1
16	FastMNN embed (hvg/scaled)	0.80	0.76	0.76	0.96	0.95	0.71	0.70	0.80	0.80	4.90	6.20	88.30	2019	v1.14.1
17	Scanorama gene output (full/scaled)	0.80	0.70	0.70	0.95	0.94	0.81	0.80	0.75	0.75	41.10	18.37	1,270.10	2019	v1.7
18	SCALEX (hvg)	0.80	0.73	0.73	0.97	0.96	0.73	0.72	0.77	0.77	18.90	11.35	2,429.80	2022	v1.0.2
19	BBKNN (hvg/unscaled)	0.79	0.62	0.62	0.98	0.98	0.85	0.84	0.74	0.74	2.10	2.07	481.80	2020	v1.5.1
20	Harmony (hvg/scaled)	0.79	0.73	0.73	0.94	0.94	0.75	0.75	0.76	0.76	5.60	2.28	594.70	2019	v0.1.7
21	Harmony (hvg/unscaled)	0.79	0.75	0.75	0.94	0.93	0.73	0.72	0.77	0.76	2.20	3.17	243.60	2019	v0.1.7
22	Combat (full/scaled)	0.79	0.70	0.70	0.98	0.98	0.74	0.73	0.75	0.75	23.60	16.02	264.20	2007	v1.9.1
23	Combat (hvg/scaled)	0.79	0.66	0.66	0.94	0.93	0.81	0.80	0.75	0.75	5.50	9.30	160.60	2007	v1.9.1
24	FastMNN feature (hvg/unscaled)	0.78	0.70	0.70	0.96	0.96	0.73	0.72	0.76	0.76	8.40	3.62	302.10	2019	v1.14.1
25	Combat (hvg/unscaled)	0.77	0.63	0.63	0.95	0.95	0.78	0.77	0.74	0.74	4.80	9.80	169.50	2007	v1.9.1
26	FastMNN feature (hvg/scaled)	0.77	0.69	0.69	0.96	0.96	0.68	0.66	0.76	0.76	9.20	8.00	166.40	2019	v1.14.1
27	BBKNN (hvg/scaled)	0.77	0.61	0.61	0.99	0.99	0.78	0.77	0.70	0.70	3.00	0.94	355.80	2020	v1.5.1
28	SCALEX (full)	0.76	0.60	0.60	0.96	0.96	0.77	0.76	0.73	0.73	25.70	41.23	2,491.60	2022	v1.0.2
29	BBKNN (full/scaled)	0.75	0.57	0.57	0.98	0.97	0.81	0.81	0.66	0.66	8.90	4.75	245.50	2020	v1.5.1
30	Scanorama (full/unscaled)	0.75	0.51	0.51	0.93	0.92	0.86	0.86	0.71	0.71	19.30	34.20	1,115.10	2019	v1.7
31	BBKNN (full/unscaled)	0.74	0.52	0.52	0.99	0.99	0.78	0.78	0.69	0.69	2.90	8.97	167.60	2020	v1.5.1
32	Harmony (full/unscaled)	0.73	0.56	0.56	0.96	0.95	0.71	0.70	0.72	0.72	2.40	4.88	540.40	2019	v0.1.7
33	Liger (hvg/unscaled)	0.72	0.70	0.70	0.88	0.87	0.60	0.59	0.74	0.74	4.90	49.42	102.10	2019	v0.5.0.9000
34	Harmony (full/scaled)	0.72	0.60	0.60	0.89	0.88	0.69	0.68	0.72	0.72	8.90	1.98	1,124.70	2019	v0.1.7
35	FastMNN embed (full/unscaled)	0.71	0.50	0.50	0.95	0.95	0.74	0.73	0.67	0.67	7.10	7.77	96.70	2019	v1.14.1
36	FastMNN embed (full/scaled)	0.71	0.49	0.49	0.95	0.95	0.75	0.74	0.67	0.67	12.30	7.27	103.80	2019	v1.14.1
37	FastMNN feature (full/scaled)	0.70	0.48	0.48	0.94	0.94	0.76	0.75	0.64	0.64	29.50	11.40	234.20	2019	v1.14.1
38	FastMNN feature (full/unscaled)	0.69	0.56	0.56	0.94	0.93	0.65	0.63	0.64	0.64	24.00	9.35	255.40	2019	v1.14.1
39	Scanorama gene output (full/unscaled)	0.68	0.44	0.44	0.80	0.77	0.81	0.81	0.71	0.71	19.40	26.07	476.70	2019	v1.7
40	Liger (full/unscaled)	0.62	0.51	0.51	0.89	0.87	0.46	0.44	0.66	0.66	15.50	177.47	100.90	2019	v0.5.0.9000