Compare temp data to https://zenodo.org/record/1175609

TIBHannover / BacDiveR

Inofficial R client for the DSMZ's Bacterial Diversity Metadatabase (former contact: @katrinleinweber). https://api.bacdive.dsmz.de/client_examples seems to be the official alternatives.

https://TIBHannover.GitHub.io/BacDiveR/

MIT License

11 stars 12 forks source link

Compare temp data to https://zenodo.org/record/1175609 #40

Open katrinleinweber opened 6 years ago

katrinleinweber commented 6 years ago

[x] check whether that dataset has different source
- partially from BacDive => reproduce results
[ ] write vignette about extracting growth temp from that dataset & through BacDiveR & mention @mengqvist then
- [x] parse his dataset, try to retrieve same species from BacDive

katrinleinweber commented 5 years ago

Since BacDive many return several strains per species, there may be many T in °C to average over. Doing that yields many datasets with diverging temperature values, though. The vignette would get a "quality control"-like spin though. Not sure how to find out whether the BacDive data was updated after being downloaded for zenodo.org/record/1175609, or whether their Python code introduced the changes.