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Marna Wagley

2016-Oct-12 08:49 UTC

[R] can we visualize water flows with 3d in R?

Hi R Users,
Is it possible to visualize river flow in  3D (latitude, longitude with
respect to depth)?
The example of my data looks like. Any suggestions?
> dat1    long lat depth flow
1 1015.9 857  1.00 1.50
2 1015.9 857  1.25 1.23
3 1015.9 857  0.50 2.00
4 1015.9 858  0.10 1.95
5 1015.9 858  0.20 1.50
6 1025.0 858  0.30 1.20
7 1025.0 858  0.40 0.50
8 1025.0 858  0.35 0.70
9 1025.0 858  0.24 1.20

Thanks for your help.
thanks

	[[alternative HTML version deleted]]

Michal Kubista

2016-Oct-12 09:27 UTC

head link

[R] can we visualize water flows with 3d in R?

Dear Marna,
This might come handy:
http://www.geo.ut.ee/aasa/LOOM02331/heatmap_in_R.html

Best regards,
Michal


*Michal Kubi?ta*
Retail Analytics Support
Europe Central/East
Nielsen
tel (+420) 242 438 737
www.nielsen.com

[image: nielsen] <http://www.nielsen.com/>

2016-10-12 10:49 GMT+02:00 Marna Wagley <marna.wagley at gmail.com>:
> Hi R Users,
> Is it possible to visualize river flow in  3D (latitude, longitude with
> respect to depth)?
> The example of my data looks like. Any suggestions?
>
> > dat1
>     long lat depth flow
> 1 1015.9 857  1.00 1.50
> 2 1015.9 857  1.25 1.23
> 3 1015.9 857  0.50 2.00
> 4 1015.9 858  0.10 1.95
> 5 1015.9 858  0.20 1.50
> 6 1025.0 858  0.30 1.20
> 7 1025.0 858  0.40 0.50
> 8 1025.0 858  0.35 0.70
> 9 1025.0 858  0.24 1.20
>
> Thanks for your help.
> thanks
>
>         [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/
> posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
	[[alternative HTML version deleted]]

Jim Lemon

2016-Oct-12 09:49 UTC

head link

[R] can we visualize water flows with 3d in R?

Hi Marna,
Isn't the conventional way to visualize depth as shades of blue?

library(plotrix)
depth.col<-color.scale(dat1$depth,extremes=c("lightblue",blue"))

Then color the lon/lat rectangles with depth.col

Jim



On Wed, Oct 12, 2016 at 7:49 PM, Marna Wagley <marna.wagley at gmail.com>
wrote:> Hi R Users,
> Is it possible to visualize river flow in  3D (latitude, longitude with
> respect to depth)?
> The example of my data looks like. Any suggestions?
>
>> dat1
>     long lat depth flow
> 1 1015.9 857  1.00 1.50
> 2 1015.9 857  1.25 1.23
> 3 1015.9 857  0.50 2.00
> 4 1015.9 858  0.10 1.95
> 5 1015.9 858  0.20 1.50
> 6 1025.0 858  0.30 1.20
> 7 1025.0 858  0.40 0.50
> 8 1025.0 858  0.35 0.70
> 9 1025.0 858  0.24 1.20
>
> Thanks for your help.
> thanks
>
>         [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.

Duncan Murdoch

2016-Oct-12 11:28 UTC

head link

[R] can we visualize water flows with 3d in R?

On 12/10/2016 4:49 AM, Marna Wagley wrote:> Hi R Users,
> Is it possible to visualize river flow in  3D (latitude, longitude with
> respect to depth)?
> The example of my data looks like. Any suggestions?
>
>> dat1
>     long lat depth flow
> 1 1015.9 857  1.00 1.50
> 2 1015.9 857  1.25 1.23
> 3 1015.9 857  0.50 2.00
> 4 1015.9 858  0.10 1.95
> 5 1015.9 858  0.20 1.50
> 6 1025.0 858  0.30 1.20
> 7 1025.0 858  0.40 0.50
> 8 1025.0 858  0.35 0.70
> 9 1025.0 858  0.24 1.20
>
> Thanks for your help.
It may be, but it's hard to give a nice looking graphic of that small 
dataset.  You could try the rgl package and use plot3d to show spheres 
with radius depending on the flow rate, for example

plot3d(cbind(long, lat, depth), type="s", col="blue",
radius=flow/5)

Duncan Murdoch

David Winsemius

2016-Oct-12 22:12 UTC

head link

[R] can we visualize water flows with 3d in R?

> On Oct 12, 2016, at 4:28 AM, Duncan Murdoch <murdoch.duncan at
gmail.com> wrote:
> 
> On 12/10/2016 4:49 AM, Marna Wagley wrote:
>> Hi R Users,
>> Is it possible to visualize river flow in  3D (latitude, longitude with
>> respect to depth)?
>> The example of my data looks like. Any suggestions?
>> 
>>> dat1
>>    long lat depth flow
>> 1 1015.9 857  1.00 1.50
>> 2 1015.9 857  1.25 1.23
>> 3 1015.9 857  0.50 2.00
>> 4 1015.9 858  0.10 1.95
>> 5 1015.9 858  0.20 1.50
>> 6 1025.0 858  0.30 1.20
>> 7 1025.0 858  0.40 0.50
>> 8 1025.0 858  0.35 0.70
>> 9 1025.0 858  0.24 1.20
>> 
>> Thanks for your help.
> 
> It may be, but it's hard to give a nice looking graphic of that small
dataset.  You could try the rgl package and use plot3d to show spheres with
radius depending on the flow rate, for example
> 
> plot3d(cbind(long, lat, depth), type="s", col="blue",
radius=flow/5)
A complementary option is to install the plot3D package which I see also has a
plot3Drgl "co-package". The advantage to this option is the
association with beautiful modeling packages that Karline Soetaert, Peter M. J.
Herman, and Thomas Petzoldt have been offering to ecologists for the last
decade. (Packages: deSolve, marelac, seacarb, AquaEnv) A lot of her work has
been on flows within systems.

I usually think of "flows" in rivers as being vector fields in an
incompressible fluid (water) with 6 components per point, but you can also think
of them as being scalar state variables. So I suppose you could be modeling
something other than mass flows.  (See Package::ReacTran for the R portal to
that mathematical world.)

Best;
David Winsemius

> 
> Duncan Murdoch
> 
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
David Winsemius
Alameda, CA, USA

Duncan Mackay

2016-Oct-13 06:05 UTC

head link

[R] can we visualize water flows with 3d in R?

Hi

With a small data set 3D is not really an option;  reduce the number of
dimensions-- 2D conditional

library(lattice)
xyplot(flow ~ depth|factor(long), dat1, groups = lat, type =
c("p","r"), pch
= 16)

I had started with lat and long reversed doing EDA gave the above
? latitude effect

Regards

Duncan


Duncan Mackay
Department of Agronomy and Soil Science
University of New England
Armidale NSW 2351
Email: home: mackay at northnet.com.au

-----Original Message-----
From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of Marna Wagley
Sent: Wednesday, 12 October 2016 19:49
To: r-help mailing list
Subject: [R] can we visualize water flows with 3d in R?

Hi R Users,
Is it possible to visualize river flow in  3D (latitude, longitude with
respect to depth)?
The example of my data looks like. Any suggestions?
> dat1    long lat depth flow
1 1015.9 857  1.00 1.50
2 1015.9 857  1.25 1.23
3 1015.9 857  0.50 2.00
4 1015.9 858  0.10 1.95
5 1015.9 858  0.20 1.50
6 1025.0 858  0.30 1.20
7 1025.0 858  0.40 0.50
8 1025.0 858  0.35 0.70
9 1025.0 858  0.24 1.20

Thanks for your help.
thanks

	[[alternative HTML version deleted]]

______________________________________________
R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.

Duncan Mackay

2016-Oct-14 08:13 UTC

head link

[R] can we visualize water flows with 3d in R?

Hi Marna

 

These are a few suggestions for EDA of your data

 

Firstly check it ? it is laborious work but it needs to be done ? use a proper
database if R is not suitable (memory,time)

 

dat <- read.csv("G:/1/example_subsetdata.csv")

dat <- subset(dat, !is.na(depth))

 

apply(dat,2,range,na.rm=T)

table(cut(dat$depth, breaks = seq(496.5, 498.5, 0.25), include.lowest = TRUE,
labels = F)) # needs more groups to even out numbers

# use hand drafted breaks

table(dat$Y)

 

dat$ldepth <- cut(dat$depth, breaks = seq(496.5, 498.5, 0.25), include.lowest
= TRUE, labels = F)

xyplot(Y ~ X|factor(ldepth), subset(dat, Y > 400), pch = ".",
as.table = TRUE)

xyplot(flow ~ X|factor(ldepth), subset(dat, Y > 400), pch = ".",
as.table = TRUE, col =1)

xyplot(flow ~ Y|factor(ldepth), subset(dat, Y > 400), pch = ".",
as.table = TRUE, col =1)

 

I have made pch = ?.? so that  points are not overtopping. increase by by units
ie cex = 2 , cex =3 if you want to make them larger

 

Have a look a lattice::par.settings  and names(trellis.par.get()) these will
make things easier if you you are using panel functions.

 

I did not go further but the next step in this would be lattice 3d plots
contourplot wireframe etc.
You will get more information in working with the full dataset
 
I have not really gone into spatials  but you should look at the task view on
spatial analysis.
and the spatial SIG
 
How you proceed will be partly determined by your future requirements of which I
am not qualified.
 
Regards
 
Duncan

 

 

 

From: Marna Wagley [mailto:marna.wagley at gmail.com] 
Sent: Friday, 14 October 2016 03:13
To: Duncan Mackay
Subject: Re: [R] can we visualize water flows with 3d in R?

 

Hi Duncan, 

Thank you very much for the message. Indeed I do have a very big data set with a
grid size of 10cm * 10 cm. Every 10 cm*10cm grid has the value of X,Y, depth and
flow measurement. I have attached a subset of the data.

Thanks 

 

 

On Wed, Oct 12, 2016 at 11:05 PM, Duncan Mackay <dulcalma at bigpond.com>
wrote:

Hi

With a small data set 3D is not really an option;  reduce the number of
dimensions-- 2D conditional

library(lattice)
xyplot(flow ~ depth|factor(long), dat1, groups = lat, type =
c("p","r"), pch
= 16)

I had started with lat and long reversed doing EDA gave the above
? latitude effect

Regards

Duncan


Duncan Mackay
Department of Agronomy and Soil Science
University of New England
Armidale NSW 2351
Email: home: mackay at northnet.com.au

-----Original Message-----
From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of Marna Wagley
Sent: Wednesday, 12 October 2016 19:49
To: r-help mailing list
Subject: [R] can we visualize water flows with 3d in R?

Hi R Users,
Is it possible to visualize river flow in  3D (latitude, longitude with
respect to depth)?
The example of my data looks like. Any suggestions?
> dat1    long lat depth flow
1 1015.9 857  1.00 1.50
2 1015.9 857  1.25 1.23
3 1015.9 857  0.50 2.00
4 1015.9 858  0.10 1.95
5 1015.9 858  0.20 1.50
6 1025.0 858  0.30 1.20
7 1025.0 858  0.40 0.50
8 1025.0 858  0.35 0.70
9 1025.0 858  0.24 1.20

Thanks for your help.
thanks

        [[alternative HTML version deleted]]


______________________________________________
R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.

______________________________________________
R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.




	[[alternative HTML version deleted]]

R help - Oct 2016 - can we visualize water flows with 3d in R?

[R] can we visualize water flows with 3d in R?

[R] can we visualize water flows with 3d in R?

[R] can we visualize water flows with 3d in R?

[R] can we visualize water flows with 3d in R?

[R] can we visualize water flows with 3d in R?

[R] can we visualize water flows with 3d in R?

[R] can we visualize water flows with 3d in R?