TABLE 1.

Numbers of declared differentially expressed genes by 12 methods for 11 defined cell types vs. the rest in the Usoskin dataset (n = 622 cells).

Methods	NF1	NF2	NF3	NF4	NF5	NP1	NP2	NP3	PEP1	PEP2	TH
edgeR	826	1206	348	646	1070	1877	880	362	1833	328	2424
DESeq2	906	963	218	402	782	1988	748	407	2649	102	2387
limma-voom	5427	3762	3777	721	2572	2505	4857	203	7892	173	4800
MAST	0	0	0	2	0	85	5	2	10	0	112
edgeR-zinb	509	778	244	550	985	1871	987	486	2475	185	3225
DESeq2-zinb	555	1003	319	453	1235	1985	786	392	2249	153	3166
NB	295	517	186	365	555	462	329	218	592	145	533
TrNB	910	703	596	1763	885	1127	2139	2254	3752	537	1986
NB-zinb	192	308	77	295	364	976	467	270	2004	100	878
Pois	745	1214	410	881	1195	1401	745	583	2104	339	1942
TrPois	242	298	82	345	321	602	756	444	3353	54	708
ZiPois	337	311	81	487	376	607	1019	446	3350	137	704