I am trying to figure out the best way to organize and plot data
generated by a Excel spreadsheet (one driving a sample turntable and
collecting optical spectra).
The output of the equipment and software is an excel spreadsheet with
sample numbers in the first row, and in the first column there is the
wavelength in nm. 2048 individual measurements (per wavelength) - 2048
rows plus the sample number row, and at present I've tested 250 samples,
with a LOT more to follow.
After I get the spreadsheet, I add a row (just below the sample numbers)
containing site locations. I've collected 50 samples per site (each
assigned a different number), so far 5 sites. The spreadsheet ends up
with 2050 rows, 250 columns.
What I want to do is generate a line graph of the data (which could be
separated out into sections of the optical spectrum), with line colors
assigned by the site name. Once that's done, the graphs make sense
(right now the only way I can do that is using the spreadsheet software,
and assigning each line the color manually - a very tiresome and
time-consuming process).
So far, I've tried everything I can to get a graph out using R, without
luck. I'm rusty with R and programming... I've used Rcmdr (tried
transposing data, various settings and so on) and 'played' with ggplot -
no success. I'm using Rcmdr to make it easier to work out the bugs,
then will write a short program to process data.
What I'd like to know is (1) what would be the best way to organize the
data - sample numbers (cases) in the first row, or in the first column
with the next row or column being the site name, (2) how would I get
ggplot to plot the line graph showing all of the samples (number listing
not important) and all (or a selection) of the different wavelengths,
while assigning line color based on site name. Once that's done, I can
show the within-group vs between-group variation compared to wavelength.
To give an idea of what the data look like:
(name = Longwave)
Sample 34900 34901 34902 34903 34904 (and so on)
Site Tp Tc Cr Ws Gs
200(nm) 300.5 783.9 101.3 623.8 1385.7
201....
You get the idea. (maximum measurement value is 4098, the instrument
takes multiple scans and averages them).
If I can figure this out, it will speed up my work - which I need to do
so I can get a grant proposal off on time.
Thank you,
Bob
Doctoral Candidate, Applied Anthropology
University of South Florida
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