[R] FOR TAKING PERCENTAGES of OTUS in each column (n=2910 COLUMNs)

[Jim Lemon]

Hi Thilini,
It is fairly simple in R once you have imported the data. Say you have
a data frame obtained by exporting the Excel table to CSV and then
importing it with "read.csv". I'm not sure whether you have a number
in each cell or just a 0/1 absent/present value, but it may not
matter. Assume the data frame is named "tjdf"

for(column in 1:dim(tjdf)[2])
 tjdf[,paste("pct",column,sep="")]<-100*tjdf[,column]/sum(tjdf[,column])

Alternatively, you could create a new data frame with just the percentages.

Jim


On Tue, Mar 7, 2017 at 12:16 PM, Thilini Maddegoda Vidanelage
<tmad109 at aucklanduni.ac.nz> wrote:
> Hi,
> I am analyzing a huge excel table with OTUs. In the table, I have 2910
> columns and 365 rows.Each column represents one individual (n=2910). Rows
> represent microbial species (n=365).
> I have the total of all OTUs of microbial species under each column. Then I
> need to get the percentages of each species in each individual.I started to
> do this in excel but I have to repeat this for 2910 times which is going to
> be very time-consuming.  I am sure there should be a smart way to do this
> and just wondering whether there is any R script to do this.Any help is
> much appreciated.
> Many thanks, Thilini
>
> *Thilini Jayasinghe*
> PhD Candidate
> Liggins Institute
> The University of Auckland
> Building 503/201, 85 Park Road, Grafton, Auckland 2023
> Mobile: +64 220211604
> Email: tmad109 at aucklanduni.ac.nz
>
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>
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