Skip to content

How to get bathymetry data using R

4 messages · Michael Sumner, Roy Mendelssohn - NOAA Federal, javad bayat

javad bayat
# 
Dear R users;
I am searching for a package to extract bathymetry data from topography map
to produce the control file for CE-Qual-w2 model.
Is there anyone to know how to do it?
many thanks.
Michael Sumner
#
On Sat, 11 Jun 2016 at 15:43 javad bayat <j.bayat194 at gmail.com> wrote:

            

      
      
      
    

        
There are few things around but I highly recommend find your own data
source, suitable for your purpose - and reading it directly with the raster
package.  If anyone knows a reliable source I'd like to hear it.

As a global go-to I use Etopo1, but you may want some more detailed (like
Gebco 2014) or a non-global one. (I can't tell where you need this for or
what resolution would be suitable from what you've asked though).

(The best format when you get a choice generally is GeoTIFF, but it depends
who creates them. I tend to use the NetCDF files from Etopo).

Raster uses rgdal for many formats, but ncdf4 exclusively for NetCDF - if
it's not called "*.nc" you can get around that).

Cheers, Mike.

            

      
      
      
    

        

      
      
    

  
    

      
      
    

  


  


      

    

    

      
      

        


  

        

      Roy Mendelssohn - NOAA Federal
    

    

      
      #
    

  


  

      
Use the ?rerddap? package that accesses our ERDDAP server.  You can see the data available at:

http://upwell.pfeg.noaa.gov/erddap

In the search box type in ?bathymetry?.    You can subset as you want, using ?rerddap? you get back a netcdf file that is already read into your R workspace,  or you can write your own 2 lines of code  (since the URL completely defines the request) and get the data back in any number of file formats.  I don?t want to get into a format war, but for large gridded datasets like this I much prefer netcdf files.

If you have any questions at all about either the ?rerddap? package  (developed by the wonderful people at ROpenSci) or about our ERDDAP service, don?t hesitate to ask.

-Roy

            

      
      
      
    

        

      
      
    

            

      
      
      
    

        

      
      
    

        
**********************
"The contents of this message do not reflect any position of the U.S. Government or NOAA."
**********************
Roy Mendelssohn
Supervisory Operations Research Analyst
NOAA/NMFS
Environmental Research Division
Southwest Fisheries Science Center
***Note new address and phone***
110 Shaffer Road
Santa Cruz, CA 95060
Phone: (831)-420-3666
Fax: (831) 420-3980
e-mail: Roy.Mendelssohn at noaa.gov www: http://www.pfeg.noaa.gov/

"Old age and treachery will overcome youth and skill."
"From those who have been given much, much will be expected" 
"the arc of the moral universe is long, but it bends toward justice" -MLK Jr.

  
  


  


      

    

    

      
      

        


  

        

      javad bayat
    

    

      
      #
    

  


  

      
Dear all;
Many thanks for your answers but I think I should explain more. What I want
to do is extracting bathymetry data from topography or DEM for a model that
uses .npt format.
Is there a package to do such a thing?
Thanks.

On Sat, Jun 11, 2016 at 8:39 PM, Roy Mendelssohn - NOAA Federal <

        
roy.mendelssohn at noaa.gov> wrote: