Table 5

Estimates of time required for taxonomic binning of some real metagenomic data sets

Metagenome

Total number of sequences

Sequence length range

Approximate estimate of time (in minutes) need for binning

Reference (s)


INDUS

TACOA

SOrt-ITEMS

MEGAN

SPHINX


Global Ocean Survey

7521215

~800bp

10530 (~ 7 days)

129580 (~90 days)

319330 (~221 days)

287095 (199 days)

15901 (11 days)

[18-20]

Lean and obese mouse metagenome

1744283

~100bp

1544 (~ 1 day)

8771 (6 days)

52097 (36 days)

48390 (33 days)

2093 (1.5 days)

[21]

Malnourished child metagenome

1496170

~250bp - 400bp

1795 (1.2 days)

17526 (12 days)

51297 (~36 days)

44885 (~31 days)

2308 (1.6 days)

[22]

Acid Mine Drainage

180713

~800bp

252

3113

7672

6898

382

[23]


Approximate time (in minutes) estimated to be taken by INDUS, TACOA, SOrt-ITEMS, MEGAN and SPHINX for binning some of the real metagenomic data sets (on a desktop with an Intel Xeon-Quad core processor and 4 GB RAM)

Mohammed et al. BMC Genomics 2011 12(Suppl 3):S4   doi:10.1186/1471-2164-12-S3-S4

Open Data