I'd like to compare the metagenomic composition of Antarctic Ocean surface water with Indian Ocean surface water. The two data sets were obtained from 454 GS FLX, but for one data set, water filters of the following type were used (min: 0.8 μm and max: 3μm ) and for other data set, different water filters were used (min: 0.1μm and max: 0.8 μm ).
Will there be any problems if I compare these two data sets? I'd like to compare the taxon's composition.
I'll be very grateful for any help.
Oh, sorry Mr. Artur. It's a filter of 0.1 μm (micrometers). It's a CAMERA's data set (http://camera.calit2.net/). They don't specify what type of filter was used.
Yeah, my question is what is the difference between them, in taxos, gene functions and predominant metabolic pathway....
There is a web tool called metastats which can compare taxonomic compositions statistically, by fitting a zero-inflated Gaussian model to each set of replicates. This would work once you have got numbers of reads for each taxonomic group at a certain taxonomic level.
Thanks Mr. Jonathan.
I'm using MG- RAST for this purpose. But, is interesting to test others tool.
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