ENVirT: inference of ecological characteristics of viruses from metagenomic data

BMC Bioinformatics

Table 2 Comparison between PHACCS + GAAS/BLAST and ENVirT estimates of viral richness and average genome length on viral metagenomes derived from different environments

Source	Sample name	ENVirT			PHACCS
		L	M	Evenness	L ^§	M	Evenness
French Lakes	Lake Bourget	62279	42999	0.84862	13089 ^⋆	33311	0.92228
[6]	Lake Pavin	81110	792	0.82202	12274 ^⋆	2628	0.89747
Feitsui	V1	24112	587	0.84216	44297 ^⋆	3059	0.72402
Reservoir	V2	16613	1288	0.88611	43926 ^⋆	513	0.93042
[17]	V3	31019	617	0.93707	95269 ^⋆	174	0.94079
	V4	16535	1092	0.89225	62395 ^⋆	399	0.91161
	V5	15177	1121	0.89919	41377 ^⋆	419	0.93946
	V6	46677	1929	0.79735	125321 ^⋆	221	0.90320
Fermented	Shrimp	27337	4931	0.92204	39839 ^†	4606	0.90349
food	Kimchi	53837	1395	0.88842	48220 ^†	1415	0.89653
[32]	Sauerkraut	277163	719	0.80599	36494 ^†	2692	0.86619
Perennial ponds	Ilij	75242	1703	0.88137	71477 ^⋆	1687	0.88550
of the	Molomhar	394921	223	0.87082	60959 ^⋆	1318	0.89228
Mauritanian Sahara	Hamdoun	176346	515	0.66600	60479 ^⋆	217	0.88719
[5]	El Berbera	81118	6199	0.69961	76501 ^⋆	5696	0.71009
Human	X-1	175863	559	0.83496	50000 ^‡	815	0.92174
gut	H1-1	497223	609	0.62918	50000 ^‡	397	0.92259
[28]	H1-2	387877	212	0.73163	50000 ^‡	353	0.92904
	H1-7	282786	151	0.78132	50000 ^‡	315	0.92531
	H1-8	570706	121	0.68525	50000 ^‡	239	0.94400

M = estimated richness, L = estimated average genome length (bp). § = Average genome length used in the original publication. ⋆= An estimate based on GAAS software ([33]). †= An estimate based on a BLAST search. ‡= Assumed value

ISSN: 1471-2105