64
Table 6.1 (continued)
Sample
no.
Name
Weblink
References
4.
SourceTracker
–
Knights et al. (2011)
Tools for single-cell sequencing analysis
1.
IDBA-UD
http://www.cs.hku.hk/~alse/idba_ud
Peng et al. (2012)
2.
SmashCell
http://asiago.stanford.edu/SmashCell
Harrington et al. (2010)
Simulators tools
1.
GemSIM
–
McElroy et al. (2012)
2.
MetaSim
–
Richter et al. (2008)
General toolkits
1.
CAMERA
http://camera.calit2.net
Seshadri et al. (2007)
2.
IMG/M
http://img.jgi.doe.gov/m
Markowitz et al. (2012)
3.
MEGAN
–
Huson et al. (2007)
4.
METAREP
http://www.jcvi.org/metarep
Goll et al. (2010)
5.
MG-RAST
http://metagenomics.anl.gov
Meyer et al. (2008), Wilke et al.
(2016)
6.
SmashCommunity
http://www.bork.embl.de/software/smash
Arumugam et al. (2010)
7.
STAMP
http://kiwi.cs.dal.ca/Software/STAMP
Parks et al. (2014)
8.
VAMPS
http://vamps.mbl.edu
Huse et al. (2014)
9.
EBI metagenomics
http://www.ebi.ac.uk/metagenomics/
Hunter et al. (2014b)
6 Bioinformatics Tools for Soil Microbiome Analysis