search

PecanProject / pecan

The Predictive Ecosystem Analyzer (PEcAn) is an integrated ecological bioinformatics toolbox.
www.pecanproject.org
Other
202 stars 234 forks source link

Global photosynth / stomatal conductance database #287

Open mdietze opened 9 years ago

mdietze commented 9 years ago

As part of Belinda Medlyn's global stomatal conductance synthesis, there's a database on leaf photosynthesis (all survey, not response curves) available at https://bitbucket.org/gsglobal/leafgasexchange

This data could be really helpful in constraining stomatal slope for any stomatal model.

In addition, this data provides an interesting situation where the data is in version control. This raises the question of whether we should download the file and import into BETY, download and handle as an input, do a git pull on the fly, etc. @robkooper I'd particularly appreciate your ideas about the best way to handle the data.

dlebauer commented 9 years ago

It seems that these data are not publicly available ... at least, I can not access them. I have contacted the author Yan-Shih Lin. Perhaps @RemkoDuursma can advise?

ankurdesai commented 9 years ago

Hmm, that's odd. There is also tables of summarize by PFT and regressed by species stomatal conductance in the supplement to the original Nature Clim. paper: http://www.nature.com/nclimate/journal/v5/n5/extref/nclimate2550-s1.pdf

mdietze commented 9 years ago

That's very odd. The repository was definitely there during the review process.

dlebauer commented 9 years ago

@ankurdesai the table has parameters for the Medlyn model; Ball Berry is more commonly used (e.g. with BioCro); ED uses (Leuning). Ideally, we could start with the raw data are available and compute the required parameters for each of these models.

RemkoDuursma commented 9 years ago

Apologies for the delay. The repository is definitely still there but perhaps, for reasons I don't know, has been made private (Yan-Shih is on maternal leave so I can't ask).. In any case the data can be downloaded here: http://figshare.com/articles/Optimal_stomatal_behaviour_around_the_world/1304289

bmedlyn commented 9 years ago

@mdietze Sorry, this was my fault - I am the owner of the repository not Yan-Shih, but did not get the message that it wasn't accessible. I trust you got hold of the data through figshare. It would of course be just as easy to change model code to use the Medlyn model + the parameters Yan-Shih derived, rather than to fit either Leuning or Ball-Berry models to the dataset - and ought to work better too ;)

github-actions[bot] commented 4 years ago

This issue is stale because it has been open 365 days with no activity.