Working out the bees example

[graciellehigino]

@tutudocerrado I've got us to the point we were at with the fish data, but for the bees and plants. It's all developed in the bees_example branch

What we need to do now is:

• [x] Clean up GBIF data as much as we can. Maybe apply the bdc package functions there, nothing too detailed, but at least remove duplicates and check species names.
• [x] Get the functions for the curves and the derivatives.

[graciellehigino]

@tutudocerrado I've updated all the code files!

I'll get the GBIF data (it's loading right now) and save an RDS for you. But if you want to subset and play with the data, all the code to get them is already in our bees_example branch.

:tada:

[graciellehigino]

@tutudocerrado We got it all, I've committed all the code. I'll send you the cleaned data by email so you don't have to download all the GBIF data again. The workflow right now looks like this:

1. Run scripts 01 and 01.1
2. Skip script 02 and run script 03 instead. Make sure to update the value after "environ_layers$" in the last line - this changes each time you download the environmental data, but we can change that later in a way that every time that we run this script, it will download a specific environmental layer. Not relevant for demonstration purposes.
3. Run scripts 4 through 6.

Script 6 has functions for us to get the derivatives by group or by species (it can probably be optimized to merge them into one single function).

• [x] The challenge now is to calculate one derivative per unique species name per unique environmental value. I started drafting something in the "dunnowhatimdoing.R" script, but got nowhere. I know it's simple, but it's Sunday, and I'm getting too many error messages for a Sunday.

[graciellehigino]

Alright, here's the occurrence data.

Enjoy!

[graciellehigino]

We now have the derivatives! Next challenge is how the heck do we get the co-response matrix???!?!?!?!