STRIDE: a command-line HMM-based identifier and sub-classifier of Plasmodium falciparum RIFIN and STEVOR variant surface antigen families

Table 1 Comparison of STRIDE to PFAM and TIGRFAM, using the same parameter values

Dataset	STRIDE								PFAM			TIGRFAM
	∑	∑ RIFIN	RIFIN-A	RIFIN-B	RIFIN	Likely RIFIN	# FHEYDER	STEVOR	∑	RIFIN	STEVOR	∑	RIFIN	STEVOR
P. falciparum 3D7 (185 rif + 43 stevor = 228)	220	182	122	52	4	4	36	38	216	178	38	215	177	38
P. reichenowi (463 rif + 66 stevor = 529)	514	452	250	158	24	20	59	62	477	416	61	498	436	62
Validation Dataset (3888 sequences)	3540	2844	1409	741	318	376	605	696	2707	2014	693	3394	2694	700
P. vivax, P. berghei, P. chabaudi	0	0	0	0	0	0	–	0	0	0	0	0	0	0

∑ represents the total number of sequences. All three tools had 100% specificity

ISSN: 1471-2105