anyone knows how to reproduce this image? (Metagenomics)

[Gorbenzer]

Hi everyone,
i was reading this interesting paper:

http://www.nature.com/nature/journal/v486/n7402/full/nature11234.html

and i was wondering how to create the Fig.1... In materials and methods looks like they used Qiime. I use Qiime too but i can't find out how they used the output data to create that image.

Anyone can help?

Fig.3 is nice too, anyone knows the software they used to represent numerical values as rounds with different dimensions?


Thanks to everyone that will help!

[dietmar13]

R

this are all graphics produced with R (http://www.r-project.org/) - i would guess...

fig. 1abd are boxplots (d) with notch=TRUE) and some modifications. fig 1c is a principal component analysis with a classical biplot, showin the first two components.

fig 3 i don't know how this is called, but R has millions of plot possibilities and this will be one of them...

[adrianl]

this are all graphics produced with R (http://www.r-project.org/) - i would guess...

I think so too. If you are interested in making plots like these yourself I suggest taking a look at the ggplot2 package that is available for R. It removes some of the complexity of doing these kinds of plots.

Cheers
//A

[Gorbenzer]

Thanks for the help,
i installed R and ggplot2 but i'm new to R... Can you suggest me a guide?

[woa]

Lots of GGPLOT stuff here in this book

http://www.amazon.com/R-Graphics-Cookbook-Winston-Chang/dp/1449316956/