HERBASE - DOCUMENTATION

Tools for new contributors

If you wish to contribute data, here you can find the model tables e some codes to help prepare data on the format used by HERBASE. We are using the datalong format, as this is more efficient for management. On the HERBASE datalong format, each line is the count (number of individuals) and/or %cover of a species in a plot. Since this differ from the datawide format (sites x species) commonly used, we provide a code to convert from datawide to datalong.

• Model tables to enter data and metadata  [arquivo model_herb_data_metadata.xlsx]
• R code to transform tables from datawide to datalong [link para arquivo script_data_transformation.R]

We also advise the taxonomic checking of your species before sending the data, using some of the tools referred below. The HERBASE taxonomic committee will also re-check that.

Flora do Brasil Online 2020: https://floradobrasil.jbrj.gov.br

Package FLORA (R): https://cran.r-project.org/web/packages/flora/index.html

Package TAXIZE (R): https://cran.r-project.org/web/packages/taxize/index.html

Tools to support new herb inventories

If you plan to start new herb inventories, check out our suggested protocols and some materials to assist in identification:

• Suggested protocols for herb inventories
• Example of one protocol for ferns used on the PPBio network

https://www.youtube.com/watch?v=RGr-eocYCRU

https://www.youtube.com/watch?v=HpBT2MWj9Us

• Identification guides for some herb groups

Guide for the identification of Zingiberales of the Eastern Brazilian Amazon https://ppbio.inpa.gov.br/sites/default/files/323%20Zingiberales-e1.pdf

Guide for the identification of Zingiberales of the Western Brazilian Amazon https://ppbio.inpa.gov.br/sites/default/files/Guia_zingiberales_Ebook.pdf

Guide for the identification of leguminous herbs of Boa Vista savanas https://ppbio.inpa.gov.br/sites/default/files/LegSavanas-RR_PPBio_09.12.2009.pdf

Guide for the identification of macrophytes of PPBio sites in Roraima https://ppbio.inpa.gov.br/sites/default/files/785_brazil_macrophytes_of_roraima.pdf

Guide for the identification of Ferns and Lycophytes of Uatumã reserve https://ppbio.inpa.gov.br/sites/default/files/GuiaSamambaiasUatumaFINAL.pdf

Guide for the identification of Marantaceae of Ducke and Uatumã reserves https://ppbio.inpa.gov.br/sites/default/files/GUIA-marantaceas-ebook_bot.pdf

Field guide to aquatic herbs of the Amazon varzea https://repositorio.inpa.gov.br/handle/1/4741

Field Guides of the Chicago Field Museum https://fieldguides.fieldmuseum.org/