cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.12734112
title: Data curation materials in "Daily life in the Open Biologist's second job, as a Data Curator"

description: This is the supplementary material accompanying the manuscript "Daily life in the Open Biologist’s second job, as a Data Curator", published in Wellcome Open Research. 

It contains:

- Python_scripts.zip: Python scripts used for data cleaning and organization:

           -add_headers.py: adds specified headers automatically to a list of csv files, creating new output files containing a "_with_headers" suffix.

           -count_NaN_values.py: counts the total number of rows containing null values in a csv file and prints the location of null values in the (row, column) format.

           -remove_rowsNaN_file.py: removes rows containing null values in a single csv file and saves the modified file with a "_dropNaN" suffix.

           -remove_rowsNaN_list.py: removes rows containing null values in list of csv files and saves the modified files with a "_dropNaN" suffix.

- README_template.txt: a template for a README file to be used to describe and accompany a dataset. 

- template_for_source_data_information.xlsx: a spreadsheet to help manuscript authors to keep track of data used for each figure (e.g., information about data location and links to dataset description).

- Supplementary_Figure_1.tif: Example of a dataset shared by us on Zenodo. The elements that make the dataset FAIR are indicated by the respective letters. Findability (F) is achieved by the dataset unique and persistent identifier (DOI), as well as by the related identifiers for the publication and dataset on GitHub. Additionally, the dataset is described with rich metadata, (e.g., keywords). Accessibility (A) is achieved by the ease of visualization and downloading using a standardised communications protocol (https). Also, the metadata are publicly accessible and licensed under the public domain. Interoperability (I) is achieved by the open formats used (CSV; R), and metadata are harvestable using the Open Archives Initiative Protocol for Metadata Harvesting (OAI-PMH), a low-barrier mechanism for repository interoperability. Reusability (R) is achieved by the complete description of the data with metadata in README files and links to the related publication (which contains more detailed information, as well as links to protocols on protocols.io). The dataset has a clear and accessible data usage license (CC-BY 4.0).
DOI: 10.5281/zenodo.13321937
title: Data curation materials in "Daily life in the Open Biologist's second job, as a Data Curator"

description: This is the supplementary material accompanying the manuscript "Daily life in the Open Biologist’s second job, as a Data Curator", published in Wellcome Open Research. 

It contains:

- Python_scripts.zip: Python scripts used for data cleaning and organization:

           -add_headers.py: adds specified headers automatically to a list of csv files, creating new output files containing a "_with_headers" suffix.

           -count_NaN_values.py: counts the total number of rows containing null values in a csv file and prints the location of null values in the (row, column) format.

           -remove_rowsNaN_file.py: removes rows containing null values in a single csv file and saves the modified file with a "_dropNaN" suffix.

           -remove_rowsNaN_list.py: removes rows containing null values in list of csv files and saves the modified files with a "_dropNaN" suffix.

- README_template.txt: a template for a README file to be used to describe and accompany a dataset. 

- template_for_source_data_information.xlsx: a spreadsheet to help manuscript authors to keep track of data used for each figure (e.g., information about data location and links to dataset description).

- Supplementary_Figure_1.tif: Example of a dataset shared by us on Zenodo. The elements that make the dataset FAIR are indicated by the respective letters. Findability (F) is achieved by the dataset unique and persistent identifier (DOI), as well as by the related identifiers for the publication and dataset on GitHub. Additionally, the dataset is described with rich metadata, (e.g., keywords). Accessibility (A) is achieved by the ease of visualization and downloading using a standardised communications protocol (https). Also, the metadata are publicly accessible and licensed under the public domain. Interoperability (I) is achieved by the open formats used (CSV; R), and metadata are harvestable using the Open Archives Initiative Protocol for Metadata Harvesting (OAI-PMH), a low-barrier mechanism for repository interoperability. Reusability (R) is achieved by the complete description of the data with metadata in README files and links to the related publication (which contains more detailed information, as well as links to protocols on protocols.io). The dataset has a clear and accessible data usage license (CC-BY 4.0).
DOI: 10.13145/bacdive117.20230509.8.1
title: Acidithiobacillus ferrooxidans (Temple and Colmer 1951) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive118.20230509.8.1
title: Acidithiobacillus ferrooxidans (Temple and Colmer 1951) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive119.20230509.8.1
title: Acidithiobacillus ferrivorans Hallberg et al. 2010

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive120.20230509.8.1
title: Acidithiobacillus ferrooxidans (Temple and Colmer 1951) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive121.20230509.8.1
title: Acidithiobacillus thiooxidans (Waksman and Joffe 1922) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive122.20230509.8.1
title: Acidithiobacillus thiooxidans (Waksman and Joffe 1922) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive123.20230509.8.1
title: Acidithiobacillus thiooxidans (Waksman and Joffe 1922) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive124.20230509.8.1
title: Acidithiobacillus thiooxidans (Waksman and Joffe 1922) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive125.20230509.8.1
title: Acidithiobacillus thiooxidans (Waksman and Joffe 1922) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive126.20230509.8.1
title: Acidithiobacillus caldus (Hallberg and Lindström 1995) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive127.20230509.8.1
title: Acidithiobacillus caldus (Hallberg and Lindström 1995) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive128.20230509.8.1
title: Acidithiobacillus albertensis (Bryant et al. 1988) Kelly and Wood 2000

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive129.20230509.8.1
title: Acidithiobacillus ferrivorans Hallberg et al. 2010

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive130.20230509.8.1
title: Acidithiobacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131.20230509.8.1
title: Acidobacterium capsulatum Kishimoto et al. 1991 emend. Pankratov et al. 2012

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive132.20230509.8.1
title: Edaphobacter modestus Koch et al. 2008

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive133.20230509.8.1
title: Edaphobacter aggregans Koch et al. 2008 emend. Dedysh et al. 2012

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive134.20230509.8.1
title: Terriglobus roseus Eichorst et al. 2007

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive135.20230509.8.1
title: Terriglobus saanensis Männistö et al. 2011

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive136.20230509.8.1
title: Granulicella rosea Pankratov and Dedysh 2010

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive137.20230509.8.1
title: Granulicella pectinivorans Pankratov and Dedysh 2010

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.21942/uva.27045469
title: Interview data

description: Interview data
DOI: 10.21942/uva.27045469.v2
title: Interview data

description: Interview data
DOI: 10.13145/bacdive138.20230509.8.1
title: Granulicella aggregans Pankratov and Dedysh 2010

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.21942/uva.27045469.v1
title: Interview data

description: Interview data
DOI: 10.13145/bacdive139.20230509.8.1
title: Granulicella paludicola Pankratov and Dedysh 2010

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive140.20230509.8.1
title: Telmatobacter bradus Pankratov et al. 2012

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive141.20230509.8.1
title: Bryocella elongata Dedysh et al. 2012

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive142.20230509.8.1
title: Acidicapsa borealis Kulichevskaya et al. 2012

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive143.20230509.8.1
title: Acidicapsa ligni Kulichevskaya et al. 2012

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive144.20230509.8.1
title: Actinobaculum suis (Wegienek and Reddy 1982) Lawson et al. 1997 emend. Yassin et al. 2015 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive145.20230509.8.1
title: Actinotignum schaalii (Lawson et al. 1997) Yassin et al. 2015

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive146.20230509.8.1
title: Actinotignum urinale (Hall et al. 2003) Yassin et al. 2015

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15468/dl.yvt2sd
title: Occurrence Download

description: A dataset containing 1801 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhaebo guttatus (Schneider, 1799)"
 ]
}

 The dataset includes 1801 records from 93 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021099-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ccdgk5
title: Occurrence Download

description: A dataset containing 154 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Calceolaria pinifolia Cav."
 ]
}

 The dataset includes 154 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0132604-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p8p69d
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Madatyphlops reuteri (Boettger, 1881)"
 ]
}

 The dataset includes 6 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0276589-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nb8ajg
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ceratostylis brachyphylla Schltr."
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0132613-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ztnj7k
title: Occurrence Download

description: A dataset containing 69 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Geometry POLYGON((-114.97192 34.66936,-109.34692 34.66936,-109.34692 36.82687,-114.97192 36.82687,-114.97192 34.66936))",
 "HasCoordinate is true",
 "TaxonKey is Juniperus osteosperma (Torr.) Little",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 69 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001871-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cuff9t
title: Occurrence Download

description: A dataset containing 5058 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is Mexico",
 "Country is United States of America"
 ]
 },
 "TaxonKey is Lantana camara L."
 ]
}

 The dataset includes 5058 records from 138 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001871-190307172214381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ysx9n7
title: Occurrence Download

description: A dataset containing 115 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Opisthotropis latouchii (Boulenger, 1899)"
 ]
}

 The dataset includes 115 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0276605-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mkzp67
title: Occurrence Download

description: A dataset containing 1151 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hemideina crassidens (Blanchard, 1851)"
 ]
}

 The dataset includes 1151 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0132603-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2np46t
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tropidophis nigriventris Bailey, 1937"
 ]
}

 The dataset includes 5 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0279928-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fvcgea
title: Occurrence Download

description: A dataset containing 804 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Mergus squamatus Gould, 1864"
 ]
}

 The dataset includes 804 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0198969-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7jrpxc
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Allium bakhtiaricum Regel"
 ]
}

 The dataset includes 11 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0179907-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qegn8x
title: Occurrence Download

description: A dataset containing 30 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ceratostylis anceps Blume"
 ]
}

 The dataset includes 30 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0132588-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rpa783
title: Occurrence Download

description: A dataset containing 286 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amphisbaena anomala (Barbour, 1914)"
 ]
}

 The dataset includes 286 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0279933-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ftyfzu
title: Occurrence Download

description: A dataset containing 8916 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Paratrechina longicornis (Latreille, 1802)"
 ]
}

 The dataset includes 8916 records from 95 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084261-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nznt8x
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Honduras",
 "TaxonKey is Otus trichopsis (Wagler, 1832)"
 ]
}

 The dataset includes 10 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0366888-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7q8ywf
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((104 28,111 28,111 33,104 33,104 28))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Melogale moschata (Gray, 1831)"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0132589-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gqjadu
title: Occurrence Download

description: A dataset containing 27556877 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is DOF/BirdLife Denmark - Observations from DOFbasen"
 ]
}

 The dataset includes 27556877 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0083060-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2z6kxg
title: Occurrence Download

description: A dataset containing 242937 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is The molluscs collection (IM) of the Muséum national d'Histoire naturelle (MNHN - Paris)"
 ]
}

 The dataset includes 242937 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0215871-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tq7zb7
title: Occurrence Download

description: A dataset containing 11237 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Geometry POLYGON((119.23242 -14.66863,124.57617 -19.10781,130.3418 -20.56286,133.29492 -23.43099,140.04492 -22.39478,145.10742 -21.35078,147.91992 -26.11204,151.01367 -29.95875,154.95117 -30.80791,167.18555 -38.10344,170.2793 -43.01429,172.95117 -44.93681,178.29492 -45.23467,233.9297 -49.09547,268.8047 -18.49628,268.8047 0.8613,249.67969 13.12014,217.05469 26.32099,180.49219 30.28184,157.9043 -9.44473,148.48242 -13.57766,138.35742 -9.16718,131.32617 -9.99915,119.23242 -14.66863))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Arecaceae"
 ]
}

 The dataset includes 11237 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084757-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9kekd9
title: Occurrence Download

description: A dataset containing 390 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "OccurrenceStatus is Present",
 "TaxonKey is Polistes instabilis de Saussure, 1853"
 ]
}

 The dataset includes 390 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0215863-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.