R-universe search: needs:hoardr

ropensci

rerddap:General Purpose Client for 'ERDDAP™' Servers

General purpose R client for 'ERDDAP™' servers. Includes functions to search for 'datasets', get summary information on 'datasets', and fetch 'datasets', in either 'csv' or 'netCDF' format. 'ERDDAP™' information: <https://upwell.pfeg.noaa.gov/erddap/information.html>.

Maintained by Roy Mendelssohn. Last updated 10 days ago.

earth science climate precipitation temperature storm buoy noaa api-client erddap noaa-data

41 stars 10.43 score 376 scripts 5 dependents

pecanproject

PEcAn.assim.batch:PEcAn Functions Used for Ecological Forecasts and Reanalysis

The Predictive Ecosystem Carbon Analyzer (PEcAn) is a scientific workflow management tool that is designed to simplify the management of model parameterization, execution, and analysis. The goal of PECAn is to streamline the interaction between data and models, and to improve the efficacy of scientific investigation.

Maintained by Istem Fer. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 9.96 score 20 scripts 2 dependents

pecanproject

PEcAnRTM:PEcAn Functions Used for Radiative Transfer Modeling

Functions for performing forward runs and inversions of radiative transfer models (RTMs). Inversions can be performed using maximum likelihood, or more complex hierarchical Bayesian methods. Underlying numerical analyses are optimized for speed using Fortran code.

Maintained by Alexey Shiklomanov. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants fortran jags cpp

216 stars 9.70 score 132 scripts

ropensci

rnoaa:'NOAA' Weather Data from R

Client for many 'NOAA' data sources including the 'NCDC' climate 'API' at <https://www.ncdc.noaa.gov/cdo-web/webservices/v2>, with functions for each of the 'API' 'endpoints': data, data categories, data sets, data types, locations, location categories, and stations. In addition, we have an interface for 'NOAA' sea ice data, the 'NOAA' severe weather inventory, 'NOAA' Historical Observing 'Metadata' Repository ('HOMR') data, 'NOAA' storm data via 'IBTrACS', tornado data via the 'NOAA' storm prediction center, and more.

Maintained by Daniel Hocking. Last updated 2 months ago.

earth science climate precipitation temperature storm buoy ncdc noaa tornadoe sea ice isd noaa-data

334 stars 9.39 score 788 scripts 4 dependents

pecanproject

PEcAn.data.land:PEcAn Functions Used for Ecological Forecasts and Reanalysis

The Predictive Ecosystem Carbon Analyzer (PEcAn) is a scientific workflow management tool that is designed to simplify the management of model parameterization, execution, and analysis. The goal of PECAn is to streamline the interaction between data and models, and to improve the efficacy of scientific investigation.

Maintained by Mike Dietze. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 9.33 score 19 scripts 10 dependents

pecanproject

PEcAn.all:PEcAn Functions Used for Ecological Forecasts and Reanalysis

The Predictive Ecosystem Carbon Analyzer (PEcAn) is a scientific workflow management tool that is designed to simplify the management of model parameterization, execution, and analysis. The goal of PEcAn is to streamline the interaction between data and models, and to improve the efficacy of scientific investigation.

Maintained by David LeBauer. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 9.00 score 266 scripts

pecanproject

PEcAn.BIOCRO:PEcAn Package for Integration of the BioCro Model

This module provides functions to link BioCro to PEcAn.

Maintained by David LeBauer. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 8.94 score 23 scripts

pecanproject

PEcAn.workflow:PEcAn Functions Used for Ecological Forecasts and Reanalysis

The Predictive Ecosystem Carbon Analyzer (PEcAn) is a scientific workflow management tool that is designed to simplify the management of model parameterization, execution, and analysis. The goal of PEcAn is to streamline the interaction between data and models, and to improve the efficacy of scientific investigation. This package provides workhorse functions that can be used to run the major steps of a PEcAn analysis.

Maintained by David LeBauer. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 8.83 score 15 scripts 4 dependents

pecanproject

PEcAn.ED2:PEcAn Package for Integration of ED2 Model

The Predictive Ecosystem Carbon Analyzer (PEcAn) is a scientific workflow management tool that is designed to simplify the management of model parameterization, execution, and analysis. The goal of PECAn is to streamline the interaction between data and models, and to improve the efficacy of scientific investigation. This package provides functions to link the Ecosystem Demography Model, version 2, to PEcAn.

Maintained by Mike Dietze. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 8.74 score 145 scripts

ropensci

traits:Species Trait Data from Around the Web

Species trait data from many different sources, including sequence data from 'NCBI' (<https://www.ncbi.nlm.nih.gov/>), plant trait data from 'BETYdb', data from 'EOL' 'Traitbank', 'Birdlife' International, and more.

Maintained by David LeBauer. Last updated 2 months ago.

traits api web-services species taxonomy api-client

41 stars 8.65 score 82 scripts 11 dependents

pecanproject

PEcAn.SIPNET:PEcAn Functions Used for Ecological Forecasts and Reanalysis

The Predictive Ecosystem Carbon Analyzer (PEcAn) is a scientific workflow management tool that is designed to simplify the management of model parameterization, execution, and analysis. The goal of PECAn is to streamline the interaction between data and models, and to improve the efficacy of scientific investigation.

Maintained by Mike Dietze. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 8.36 score 61 scripts

pecanproject

PEcAn.LINKAGES:PEcAn Package for Integration of the LINKAGES Model

This module provides functions to link the (LINKAGES) to PEcAn.

Maintained by Ann Raiho. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 8.35 score 59 scripts

pecanproject

PEcAnAssimSequential:PEcAn Functions Used for Ecological Forecasts and Reanalysis

The Predictive Ecosystem Carbon Analyzer (PEcAn) is a scientific workflow management tool that is designed to simplify the management of model parameterization, execution, and analysis. The goal of PECAn is to streamline the interaction between data and models, and to improve the efficacy of scientific investigation.

Maintained by Mike Dietze. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 8.12 score 35 scripts

tbep-tech

tbeptools:Data and Indicators for the Tampa Bay Estuary Program

Several functions are provided for working with Tampa Bay Estuary Program data and indicators, including the water quality report card, tidal creek assessments, Tampa Bay Nekton Index, Tampa Bay Benthic Index, seagrass transect data, habitat report card, and fecal indicator bacteria. Additional functions are provided for miscellaneous tasks, such as reference library curation.

Maintained by Marcus Beck. Last updated 2 days ago.

data-analysis tampa-bay tbep water-quality

10 stars 7.86 score 133 scripts

pecanproject

PEcAn.LDNDC:PEcAn package for integration of the LDNDC model

This module provides functions to link the (LDNDC) to PEcAn.

Maintained by Henri Kajasilta. Last updated 3 days ago.

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants jags cpp

216 stars 7.58 score

ropensci

taxlist:Handling Taxonomic Lists

Handling taxonomic lists through objects of class 'taxlist'. This package provides functions to import species lists from 'Turboveg' (<https://www.synbiosys.alterra.nl/turboveg/>) and the possibility to create backups from resulting R-objects. Also quick displays are implemented as summary-methods.

Maintained by Miguel Alvarez. Last updated 7 months ago.

12 stars 7.07 score 81 scripts 2 dependents

ropensci

getCRUCLdata:'CRU' 'CL' v. 2.0 Climatology Client

Provides functions that automate downloading and importing University of East Anglia Climate Research Unit ('CRU') 'CL' v. 2.0 climatology data, facilitates the calculation of minimum temperature and maximum temperature and formats the data into a data.table object or a list of 'terra' 'rast' objects for use. 'CRU' 'CL' v. 2.0 data are a gridded climatology of 1961-1990 monthly means released in 2002 and cover all land areas (excluding Antarctica) at 10 arc minutes (0.1666667 degree) resolution. For more information see the description of the data provided by the University of East Anglia Climate Research Unit, <https://crudata.uea.ac.uk/cru/data/hrg/tmc/readme.txt>.

Maintained by Adam H. Sparks. Last updated 24 days ago.

anglia-cru climate-data cru-cl2 temperature rainfall elevation data-access wind relative-humidity solar-radiation diurnal-temperature frost cru peer-reviewed

18 stars 6.83 score 18 scripts

ropensci

pangaear:Client for the 'Pangaea' Database

Tools to interact with the 'Pangaea' Database (<https://www.pangaea.de>), including functions for searching for data, fetching 'datasets' by 'dataset' 'ID', and working with the 'Pangaea' 'OAI-PMH' service.

Maintained by Scott Chamberlain. Last updated 2 years ago.

pangaea environmental science earth science archive paleontology ecology chemistry atmosphere api-client data paleobiology scientific webservice-client

21 stars 6.27 score 29 scripts

rmendels

rerddapXtracto:Extracts Environmental Data from 'ERDDAP™' Web Services

Contains three functions that access environmental data from any 'ERDDAP™' data web service. The rxtracto() function extracts data along a trajectory for a given "radius" around the point. The rxtracto_3D() function extracts data in a box. The rxtractogon() function extracts data in a polygon. All of those three function use the 'rerddap' package to extract the data, and should work with any 'ERDDAP™' server. There are also two functions, plotBBox() and plotTrack() that use the 'plotdap' package to simplify the creation of maps of the data.

Maintained by Roy Mendelssohn. Last updated 10 days ago.

14 stars 5.97 score 44 scripts

taikisan21

PAMmisc:Miscellaneous Functions for Passive Acoustic Analysis

A collection of miscellaneous functions for passive acoustics. Much of the content here is adapted to R from code written by other people. If you have any ideas of functions to add, please contact Taiki Sakai.

Maintained by Taiki Sakai. Last updated 13 days ago.

4 stars 5.91 score 42 scripts 2 dependents

taikisan21

PAMpal:Load and Process Passive Acoustic Data

Tools for loading and processing passive acoustic data. Read in data that has been processed in 'Pamguard' (<https://www.pamguard.org/>), apply a suite processing functions, and export data for reports or external modeling tools. Parameter calculations implement methods by Oswald et al (2007) <doi:10.1121/1.2743157>, Griffiths et al (2020) <doi:10.1121/10.0001229> and Baumann-Pickering et al (2010) <doi:10.1121/1.3479549>.

Maintained by Taiki Sakai. Last updated 26 days ago.

9 stars 5.87 score 79 scripts

ropensci

taxizedb:Tools for Working with 'Taxonomic' Databases

Tools for working with 'taxonomic' databases, including utilities for downloading databases, loading them into various 'SQL' databases, cleaning up files, and providing a 'SQL' connection that can be used to do 'SQL' queries directly or used in 'dplyr'.

Maintained by Tamás Stirling. Last updated 2 months ago.

itis taxize taxonomic-databases taxonomy

31 stars 5.86 score 86 scripts 1 dependents

ropensci

rdryad:Access for Dryad Web Services

Interface to the Dryad "Solr" API, their "OAI-PMH" service, and fetch datasets. Dryad (<https://datadryad.org/>) is a curated host of data underlying scientific publications.

Maintained by Scott Chamberlain. Last updated 2 years ago.

data doi dryad dryad-api oai-pmh

26 stars 5.64 score 48 scripts

taikisan21

PAMscapes:Tools for Summarising and Analysing Soundscape Data

A variety of tools relevant to the analysis of marine soundscape data. There are tools for downloading AIS (automatic identification system) data from Marine Cadastre <https://hub.marinecadastre.gov>, connecting AIS data to GPS coordinates, plotting summaries of various soundscape measurements, and downloading relevant environmental variables (wind, swell height) from the National Center for Atmospheric Research data server <https://rda.ucar.edu/datasets/ds084.1/>. Most tools were developed to work well with output from 'Triton' software, but can be adapted to work with any similar measurements.

Maintained by Taiki Sakai. Last updated 10 days ago.

8 stars 5.36 score 22 scripts

rmendels

plotdap:Easily Visualize Data from 'ERDDAP' Servers via the 'rerddap' Package

Easily visualize and animate 'tabledap' and 'griddap' objects obtained via the 'rerddap' package in a simple one-line command, using either base graphics or 'ggplot2' graphics. 'plotdap' handles extracting and reshaping the data, map projections and continental outlines. Optionally the data can be animated through time using the 'gganmiate' package.

Maintained by Roy Mendelssohn. Last updated 10 days ago.

10 stars 5.05 score 37 scripts 1 dependents

afrimapr

afrihealthsites:Geographic locations of African health facilities from different sources

African healthsite locations from healthsites.io and WHO/KEMRI-WELLCOME.

Maintained by Andy South. Last updated 4 years ago.

africa african-health-sites

31 stars 4.79 score 40 scripts

kamapu

vegtable:Handling Vegetation Data Sets

Import and handling data from vegetation-plot databases, especially data stored in 'Turboveg 2' (<https://www.synbiosys.alterra.nl/turboveg/>). Also import/export routines for exchange of data with 'Juice' (<https://www.sci.muni.cz/botany/juice/>) are implemented.

Maintained by Miguel Alvarez. Last updated 9 months ago.

7 stars 4.23 score 49 scripts

afrimapr

afriadmin:African Administrative Boundary Polygons

Will make administrative boundary polygons for Africa easily accessible from R.

Maintained by Andy South. Last updated 3 years ago.

16 stars 4.00 score 21 scripts 2 dependents

florianjansen

vegdata:Access Vegetation Databases and Treat Taxonomy

Handling of vegetation data from different sources ( Turboveg 2.0 <https://www.synbiosys.alterra.nl/turboveg/>; the German national repository <https://www.vegetweb.de> and others. Taxonomic harmonization (given appropriate taxonomic lists, e.g. the German taxonomic standard list "GermanSL", <https://germansl.infinitenature.org>).

Maintained by Florian Jansen. Last updated 1 years ago.

2 stars 3.84 score 38 scripts 3 dependents

tbep-tech

tbeploads:Calculate Loading Data to Tampa Bay

Loading data from major sources to Tampa Bay are calculated on a monthly or annual basis. Major sources include domestic point source (reuse, end of pipe), industrial point source, material losses, non-point sources (MS4), atmospheric deposition, and groundwater.

Maintained by Marcus Beck. Last updated 8 months ago.

data-analysis loads tampa-bay tbep tbnmc water-quality

3.81 score 3 scripts

kamapu

taxnames:Formatting Taxonomic Names in Markdown

A collection of functions used to format taxonomic names in Markdown documents. Those functions work with data structured according to Alvarez and Luebert (2018) <doi:10.3897/bdj.6.e23635>.

Maintained by Miguel Alvarez. Last updated 9 months ago.

1 stars 3.18 score

nenuial

geographer:Geography Vizualisations

Provides function and objects to establish vizualisations for my Geography lessons.

Maintained by Pascal Burkhard. Last updated 1 months ago.

2 stars 3.08 score

ropensci

onekp:Retrieve Data from the 1000 Plants Initiative (1KP)

The 1000 Plants Initiative (www.onekp.com) has sequenced the transcriptomes of over 1000 plant species. This package allows these sequences and metadata to be retrieved and filtered by code, species or recursively by clade. Scientific names and NCBI taxonomy IDs are both supported.

Maintained by Dhakal Rijan. Last updated 2 years ago.

13 stars 2.81 score 4 scripts

nenuial

geovizr:Support for Knitr (Quarto/Rmd)

Provide support functions for Quarto and Rmd documents.

Maintained by Pascal Burkhard. Last updated 1 months ago.

2.60 score 3 scripts

afrimapr

africovid:Visualisation of Sub-National Covid Data for Africa

Visualisation of Sub-National Covid Data for Africa.

Maintained by Andy South. Last updated 4 years ago.

1.70 score

spatialworks

mozambique:Datasets for Designing Surveys in Mozambique

Designing surveys require relevant datasets to be used as basis for sample size calculations, sampling design, survey planning/logistics and survey implementation. These include datasets on population, lists of sampling clusters, map datasets for spatial sampling, and previous survey datasets that can be used for estimating indicator variance and design effects. This package contains relevant datasets for use in designing surveys in Mozambique.

Maintained by Ernest Guevarra. Last updated 3 years ago.

1 stars 1.70 score 1 scripts

spatialworks

malawi:Datasets for Designing Surveys in Malawi

Designing surveys require relevant datasets to be used as basis for sample size calculations, sampling design, survey planning/logistics and survey implementation. These include datasets on population, lists of sampling clusters, map datasets for spatial sampling, and previous survey datasets that can be used for estimating indicator variance and design effects. This package contains relevant datasets for use in designing surveys in Malawi.

Maintained by Ernest Guevarra. Last updated 2 years ago.

1 stars 1.70 score