Blog Archives

India has 100k records on iNaturalist

April 21, 2019
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India has 100k records on iNaturalist

Biodiversity citizen scientists use iNaturalist to post their observations with photographs. The observations are then curated there by crowd-sourcing the identifications and other trait related aspects too. The data once converted to “research grade” is passed on to GBIF as occurrence records. Exciting news from India in 3rd week of April 2019 is: Another important

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Darwinazing biodiversity data in R

March 14, 2018
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“Darwin Core (DwC) is a standard maintained by the Darwin Core maintenance group. It includes a glossary of terms (in other contexts these might be called properties, elements, fields, columns, attributes, or concepts) intended to facilitate the sharing of information about biological diversity by providing identifiers, labels, and definitions. Darwin Core is primarily based on

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Google Summer of Code 2018

March 13, 2018
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Google Summer of Code 2018

R project has been participating in Google Summer of Code (GSoC) since 2008. We have numerous packages which have received code contributions from GSoC participants. This year too, R is participating and there is already an impressive list of potential projects listed at and the project mentors are seeking students to work on these

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GSoC 2017 : Parser for Biodiversity Checklists

May 31, 2017
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GSoC 2017 : Parser for Biodiversity Checklists

Guest post by Qingyue Xu Compiling taxonomic checklists from varied sources of data is a common task that biodiversity informaticians encounter. In the GSoC 2017 project Parser for Biodiversity checklists, my overall goal is to extract taxonomic names from given text into a tabular format so that easy aggregation of biodiversity data in a structured

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GSoC 2017 : Biodiversity data cleaning

May 17, 2017
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GSoC 2017 : Biodiversity data cleaning

By Ashwin Agrawal URL of the Project Idea: https://github.com/rstats-gsoc/gsoc2017/wiki/Biodiversity-data-cleaning Introduction There are an increasing number of scientists using R for their data analyses, however, the skill set required to handle biodiversity data in R, is considerably varies. Since, users need to retrieve, manage and assess high volume data with complex structure (Darwin Core standard, DwC); only

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GSoC 2017 : Integrating biodiversity data curation functionality

May 7, 2017
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GSoC 2017 : Integrating biodiversity data curation functionality

By Thiloshon Nagarajah URL of project idea page: https://github.com/rstats-gsoc/gsoc2017/wiki/Integrating-biodiversity-data-curation-functionality Introduction The importance of data in the biodiversity research has been repeatedly stressed in the recent times and various organizations have come together and followed each other to provide data for advancing biodiversity research. But, that is exactly where the main hiccup of biodiversity research lies. Since

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Mapping Biodiversity data on smaller than one degree scale

February 22, 2017
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Mapping Biodiversity data on smaller than one degree scale

Guest Post by Enjie (Jane) LI I have been using bdvis package (version 0.2.9) to visualize the iNaturalist records of RAScals project (http://www.inaturalist.org/projects/rascals). Initially, the mapgrid function in the bdvis version 0.2.9 was written to map the number of records, number of species and completeness in a 1-degree cell grid (~111km x 111km resolution). I applied this

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Creating figures like the paper ‘Completeness of Digital Accessible Knowledge of Plants of Ghana’ Part 4

December 13, 2016
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Creating figures like the paper ‘Completeness of Digital Accessible Knowledge of Plants of Ghana’ Part 4

This is the fourth part of the of the post where are going to create figure 4 Plot of Inventory Completeness against sample size for grid cells. Part 3 of this series we created chronohorogram for understanding seasonality by year of the data records. If you have not already done so, please follow steps in Part 1 of the post

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Creating figures like the paper ‘Completeness of Digital Accessible Knowledge of Plants of Ghana’ Part 3

November 22, 2016
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Creating figures like the paper ‘Completeness of Digital Accessible Knowledge of Plants of Ghana’ Part 3

This is the third part of the of the post where we are replicating the figures from a paper and in this part we are going to create figure 2 the Chronohorogram. Part 2 of this series we created temporal plot for understanding seasonality of the data records (Figure 1b). If you have not already done

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Creating figures like the paper ‘Completeness of Digital Accessible Knowledge of Plants of Ghana’ Part 2

November 8, 2016
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Creating figures like the paper ‘Completeness of Digital Accessible Knowledge of Plants of Ghana’ Part 2

Continuing from Part 1, in case you have not done so, please set up the data as described before we try to make this temporal polar plot. To create Figure 1b. Graph showing accumulation of records through time (during the year) we need  use function tempolar. This name ‘tempolar’ is simply a short of ‘temporal polar’. For this

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