I use softwares like Maxent and Diva Gis for niche modelling, but i want to do the whole process with R.
Where can i find scripts for niche modelling with the explanation of how to use them?
Thanks a lot!
Dear Carolina,
for your purpose R provides interesting packages, such as the widely used :
1. adehabitatHS (https://cran.r-project.org/web/packages/adehabitatHS/index.html);
2. biomod2 (https://cran.r-project.org/web/packages/biomod2/index.html);
3. ecospat (https://cran.r-project.org/web/packages/ecospat/index.html);
4. maxlike (https://cran.r-project.org/web/packages/maxlike/index.html).
Hope you will find these packages as useful as i did.
Very best wishes
Pietro
See intro on that topic in R here:
https://cran.r-project.org/web/packages/dismo/vignettes/sdm.pdf
Hi Carolina -
I use the dismo package a lot for SDMs in R (see link above from Patrick). It facilitates different algorithms. Also, if you are using Maxent, you might be interested in our package 'ENMeval', which helps "tune" the Maxent settings and provides several evaluation statistics.
https://cran.r-project.org/web/packages/ENMeval/index.html
Open access paper describing ENMeval:
http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12261/abstract
Hope it helps,
Bob
Thanks to everyone for the help with information, i'm gonna to read all this links and if i still have questions, i will let you know..
Thanks!
Hi Carolina, I like a lot of the vignette of Dismo package by Robert Hijmans and Jane Elith. That is what Patrick Mcintyre recommended to you: https://cran.r-project.org/web/packages/dismo/vignettes/sdm.pdf
This manual is fantastic, ease to follow, intuitive and complete.
Good lucky.
Matheus
Hi Matheus,
Thank you very much for the information, I´ve read it quickly and seems very helpful
Thanks!
Hi Carolina,
if you want to use the R package biomod2 for modeling, there are vignettes available with code which you can follow: http://finzi.psych.upenn.edu/library/biomod2/doc/
You can combine this with the manual that Matheus posted, and furthermore check the tutorials for BIOMOD package which can be useful (note that package BIOMOD is not supported any more, biomod2 is the current one, but the documentation for BIOMOD is still very useful):
http://www.will.chez-alice.fr/pdf/BiomodTutorial.pdf
http://r-forge.r-project.org/scm/viewvc.php/*checkout*/pkg/inst/doc/Biomod_Presentation_Manual.pdf?revision=218&root=biomod&pathrev=218
Good luck,
Mirza.
- Badges
- Science topic
- Similar topics
- Mathematics
- Statistics
- Statistical Software
- R