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02-13-2017, 06:57 PM
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#1 |
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Member
Location: Toronto Join Date: Nov 2016
Posts: 19
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PCoA Plots
Hi Everyone,
I have HiSequencing data that I want to set up PCoA plots for. These are environmental samples and I want to look at the diversity between the samples in terms of taxonomy. What programs can I use for PCoA ? I know R is one option but I have not been able to find a comprehensive tutorial on how to use it. Thank you |
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02-14-2017, 10:17 AM
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#2 |
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Senior Member
Location: CT Join Date: Apr 2015
Posts: 243
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I recommend Legendre's Numerical Ecology with R for learning how to do multivariate stats in R. Your uni may have it as an ebook
__________________
Microbial ecologist, running a sequencing core. I have lots of strong opinions on how to survey communities, pretty sure some are even correct. |
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02-16-2017, 09:29 AM
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#3 |
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Senior Member
Location: California Join Date: Jul 2014
Posts: 198
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I like the phyloseq R package:
https://joey711.github.io/phyloseq/ If you are new to metagenomics work, you may want to start here: http://qiime.org/ |
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| Tags |
| diversity, hiseq, sequencing, taxonomy |
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