Home

Open science

Everything we make is public. All data we produce, code we write, and results we generate.

Most research is shared only once it is finished and polished. We try to work the other way round: with the workshop doors open. We try to publish ideas, half-working code and preliminary results as we go. It makes for a messier record, but it also means anyone can follow, reuse, and point out mistakes while there is still time to fix it.

How we work

Open by default
All data, code and processing outputs are released publicly under open licences.
FAIR
Every dataset remains linked to persistent identifiers and metadata so it stays findable and reusable.
Traceable
Every chemical profile stays linked to a documented garden accession and collection record.
Built to scale
Robust workflows designed to grow garden by garden.

Where the work lives

All code and processing scripts are on our GitHub repository. We publish our methods, meeting notes and unfinished thinking into this Dendron notebook. Expect a lot of strange ideas and half-working code.

Public datasets

While we are working on the new data portal, we deposit all mass spectrometry data in the public GNPS/MassIVE repository.

Accession Title & description Repository
Accession MSV000090953 Title Neuchâtel botanical garden, pilot batch 300 plant species from the Botanical Garden of Neuchâtel, submitted by the Defossez lab (PEMG). Repository GNPS/MassIVE View dataset
Accession MSV000091029 Title Neuchâtel botanical garden, extended profiling 80 further plant species from the Botanical Garden of Neuchâtel, submitted by the Defossez lab (PEMG). Repository GNPS/MassIVE View dataset
Accession MSV000102437 Title Prague botanical garden, batch 004 Plant samples from the Troja Botanical Garden, Prague, analysed by the Pluskal lab. Repository GNPS/MassIVE View dataset
Accession MSV000102438 Title Prague botanical garden, batch 006 Plant samples from the Troja Botanical Garden, Prague, analysed by the Pluskal lab. Repository GNPS/MassIVE View dataset
Accession MSV000102439 Title Prague botanical garden, batch 005 Plant samples from the Troja Botanical Garden, Prague, analysed by the Pluskal lab. Repository GNPS/MassIVE View dataset