Blog Archives

GSoC Proposal 2014: package bdvis: Biodiversity Data Visualizations

March 17, 2014
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GSoC Proposal 2014: package bdvis: Biodiversity Data Visualizations

I am applying for Google Summer of Code 2014 again with “Biodiversity Data Visualizations using R” proposal. We are proposing to take package bdvis to next level by adding more functions and making it available through CRAN. I am posting this idea to get feedback and suggestions from Biodiversity Informatics community.

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Package rinat use case: map of iNaturalist project

March 11, 2014
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Package rinat use case: map of iNaturalist project

iNaturalist projects are collection of records posted on iNatualist. Now that we have a R package rinat from rOpenSci I thought of playing around with the data. Here is a function I wrote, to quickly map all the records of a project using ggmap package. We can used get_inat_obs_project function from rinat package to get

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Temporal visualization of records of IndianMoths project using bdvis

August 13, 2013
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Temporal visualization of records of IndianMoths project using bdvis

I was looking for some data set which has some bias in terms of temporal data. I thought of checking out the data from iNaturalist project IndianMoths. This project is aimed at documenting moths from India. This project was initiated in July 2012 but really caught steam in January 2013, with members contributing regularly, minimum

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bdvis development version available for early feedback

July 30, 2013
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bdvis development version available for early feedback

Google Summer of Code 2013 is half way through. Mid term evaluations are underway. I thought this is a good logical point for us to share what we have been doing for Biodiversity Data Visualizations in R project and open up the package for testing and some early feedback. We have named the package bdvis.

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GSoC Proposal 2013: Biodiversity Visualizations using R

April 29, 2013
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GSoC Proposal 2013: Biodiversity Visualizations using R

I am applying for Google Summer of Code 2013 with this “Biodiversity Visualizations using R” proposal. I am posting this idea to get feedback and suggestions from Biodiversity Informatics community.

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Exploring distributions of Ensatina salamander subspecies using rvertnet by Neil Kelly

August 9, 2012
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Exploring distributions of Ensatina salamander subspecies using rvertnet by Neil Kelly

This week we have a guest blog post by Neil Kelley Last week, I stumbled on Vijay’s blog post demonstrating his new package rvertnet. Although I am a paleontologist, some of my research involves anatomical comparison between extinct species and extant relatives or ecological analogs, so I have some experience using VertNet to track down

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Blue Jay and Scrub Jay : Using rvertnet to check the distributions in R

July 30, 2012
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Blue Jay and Scrub Jay : Using rvertnet to check the distributions in R

As part of my Google Summer of Code, I am also working on another package for R called rvertnet. This package is a wrapper in R for VertNet websites. Vertnet is a vertebrate distributed database network consisting of FishNet2, MaNIS, HerpNET, and ORNIS. Out of that currently Fishnet, HerpNET and ORNIS have their v2 portals serving data. rvertnet has functions now to access

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Map biodiversity records with rgbif and ggmap packages in R

July 23, 2012
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Map biodiversity records with rgbif and ggmap packages in R

When I attended usrR! 2012 last month, there was an interesting presentation by Dr. David Kahle about the package ggmap. It is a package built over ggmap2 and helps us map spatial data over online maps like Google maps or Open Street Maps. I decided to give ggmap package a try with biodiversity data. So

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Map biodiversity records with rgbif and dismo packages in R

July 15, 2012
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Map biodiversity records with rgbif and dismo packages in R

In the earlier post we generated maps from GBIF biodiversity records using maps and ggplot2 packages. We used world map with country borders for that. Now we will generate maps with google maps as base layer using dismo package. Like earlier we download data for Danaus chrysippus from GBIF using occurrencelist function into a data

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Map biodiversity records with rgbif, maps and ggplot2 packages in R

July 9, 2012
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Map biodiversity records with rgbif, maps and ggplot2 packages in R

Global Biodiversity Information Facility or GBIF is an international consortium working towards making Biodiversity information available through single portal to everyone.  GBIF with its partners are working towards mobilizing data, developing data and metadata standards, developing distributed database system and making the data accessible through APIs. At this point this largest single window data source covering wide spectrum of taxa and

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