Supplementary material 4 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Supplementary material 1 from: Penev L, Paton A, Nicolson N, Kirk P, Pyle RL, Whitton R, Georgiev T, Barker C, Hopkins C, Robert V, Biserkov J, Stoev P (2016) A common registration-to-publication automated pipeline for nomenclatural acts for higher plants (International Plant Names Index, IPNI), fungi (Index Fungorum, MycoBank) and animals (ZooBank). In: Michel E (Ed.) Anchoring Biodiversity Information: From Sherborn to the 21st century and beyond. ZooKeys 550: 233–246. https://doi.org/10.3897/zookeys.550.9551

Penev, Lyubomir
Paton, Alan
Nicolson, Nicola
Kirk, Paul
Pyle, Richard
Whitton, Robert
Georgiev, Teodor
Barker, Christine
Hopkins, Christopher
Robert, Vincent
Bisserkov, Jordan
Stoev, Pavel

January 2016

XML response of IPNI : Explanation note: XML query sent from Pensoft to IPNI on the day of acc...

Supplementary material 1 from: Funk V, Gostel M, Devine A, Kelloff C, Wurdack K, Tuccinardi C, Radosavljevic A, Peters M, Coddington J (2017) Guidelines for collecting vouchers and tissues intended for genomic work (Smithsonian Institution): Botany Best Practices. Biodiversity Data Journal 5: e11625. https://doi.org/10.3897/BDJ.5.e11625

Funk, Vicki
Gostel, Morgan
Devine, Amanda
Kelloff, Carol
Wurdack, Kenneth
Tuccinardi, Chris
Radosavljevic, Aleks
Peters, Melinda
Coddington, Jonathan

January 2018

Two lists of articles discussing various herbarium procedures and collecting technique

Supplementary material 8 from: Bowser ML, Brassfield R, Dziergowski A, Eskelin T, Hester J, Magness DR, McInnis M, Melvin T, Morton JM, Stone J (2020) Towards conserving natural diversity: A biotic inventory by observations, specimens, DNA barcoding and high-throughput sequencing methods. Biodiversity Data Journal 8: e50124. https://doi.org/10.3897/BDJ.8.e50124

Bowser, Matthew
Brassfield, Rebekah
Dziergowski, Annie
Eskelin, Todd
Hester, Jennifer
Magness, Dawn
McInnis, Mariah
Melvin, Tracy
Morton, John
Stone, Joel

March 2020

BOLD TaxonID Tree for SlikokOtu1170 generated by BOLD's Identification Engine, 26.December.201

Supplementary material 3 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

Comma-delimited ASCII data corresponding to specimens held in a series of museum collection

Supplementary material 2 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

These data are the summaries of data leaks in each of three dimensions for each of the bird and herb...

Supplementary material 1 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

This file offers detailed responses to two reviewers' comments, which were presented as very long, m...

Supplementary material 4 from: Dillen M, Groom Q, Chagnoux S, Güntsch A, Hardisty A, Haston E, Livermore L, Runnel V, Schulman L, Willemse L, Wu Z, Phillips S (2019) A benchmark dataset of herbarium specimen images with label data. Biodiversity Data Journal 7: e31817. https://doi.org/10.3897/BDJ.7.e31817

Dillen, Mathias
Groom, Quentin
Chagnoux, Simon
Güntsch, Anton
Hardisty, Alex
Haston, Elspeth
Livermore, Laurence
Runnel, Veljo
Schulman, Leif
Willemse, Luc
Wu, Zhengzhe
Phillips, Sarah

February 2019

This R script file contains the different scripts used to obtain metadata, join it, export it and pr...

Figure 1 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

Figure 1 Schematic summarizing the translation between biodiversity and biodiversity data, and how t...

Supplementary material 1 from: Dillen M, Groom Q, Chagnoux S, Güntsch A, Hardisty A, Haston E, Livermore L, Runnel V, Schulman L, Willemse L, Wu Z, Phillips S (2019) A benchmark dataset of herbarium specimen images with label data. Biodiversity Data Journal 7: e31817. https://doi.org/10.3897/BDJ.7.e31817

Dillen, Mathias
Groom, Quentin
Chagnoux, Simon
Güntsch, Anton
Hardisty, Alex
Haston, Elspeth
Livermore, Laurence
Runnel, Veljo
Schulman, Leif
Willemse, Luc
Wu, Zhengzhe
Phillips, Sarah

February 2019

Interactive version of the taxonomic coverage chart, Figure 2 in the article. Rendered using Krona (...

Supplementary material 1 from: Murray BR, Martin LJ, Phillips ML, Pyšek P (2017) Taxonomic perils and pitfalls of dataset assembly in ecology: a case study of the naturalized Asteraceae in Australia. NeoBiota 34: 1-20. https://doi.org/10.3897/neobiota.34.11139

Murray, Brad R.
Martin, Leigh J.
Phillips, Megan L.
Pyšek, Petr

February 2017

Final dataset : Explanation note: The final dataset (FD) of naturalized species and infra-spec...

Supplementary material 3 from: Penev L, Paton A, Nicolson N, Kirk P, Pyle RL, Whitton R, Georgiev T, Barker C, Hopkins C, Robert V, Biserkov J, Stoev P (2016) A common registration-to-publication automated pipeline for nomenclatural acts for higher plants (International Plant Names Index, IPNI), fungi (Index Fungorum, MycoBank) and animals (ZooBank). In: Michel E (Ed.) Anchoring Biodiversity Information: From Sherborn to the 21st century and beyond. ZooKeys 550: 233–246. https://doi.org/10.3897/zookeys.550.9551

Penev, Lyubomir
Paton, Alan
Nicolson, Nicola
Kirk, Paul
Pyle, Richard
Whitton, Robert
Georgiev, Teodor
Barker, Christine
Hopkins, Christopher
Robert, Vincent
Bisserkov, Jordan
Stoev, Pavel

January 2016

XML response of TaxPub : Explanation note: TaxPub XML of a ready-to-publish manuscript submitt...

Supplementary material 3 from: Bowser ML, Brassfield R, Dziergowski A, Eskelin T, Hester J, Magness DR, McInnis M, Melvin T, Morton JM, Stone J (2020) Towards conserving natural diversity: A biotic inventory by observations, specimens, DNA barcoding and high-throughput sequencing methods. Biodiversity Data Journal 8: e50124. https://doi.org/10.3897/BDJ.8.e50124

Bowser, Matthew
Brassfield, Rebekah
Dziergowski, Annie
Eskelin, Todd
Hester, Jennifer
Magness, Dawn
McInnis, Mariah
Melvin, Tracy
Morton, John
Stone, Joel

March 2020

This spreadsheet contains the original identifications of specimens shipped to Trevor Goward for ide...

Supplementary material 2 from: Murray BR, Martin LJ, Phillips ML, Pyšek P (2017) Taxonomic perils and pitfalls of dataset assembly in ecology: a case study of the naturalized Asteraceae in Australia. NeoBiota 34: 1-20. https://doi.org/10.3897/neobiota.34.11139

Murray, Brad R.
Martin, Leigh J.
Phillips, Megan L.
Pyšek, Petr

February 2017

Companion dataset : Explanation note: The companion dataset (CD) for naturalized Asteraceae in...

Figure 2 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

Figure 2 Summary of patterns of completeness and incompleteness of information for 6 ornithological ...

Supplementary material 1: Global Biodiversity Information Facility: Taxa and Records from: Integrating and visualizing primary data from prospective and legacy taxonomic literature - Biodiversity Data Journal 3: e5063 (12 May 2015) https://doi.org/10.3897/BDJ.3.e5063

GBIF (5293459)

May 2018

All records in GBIF with taxonomic ranks (kingdom, phylum, class, order, and species), basis of reco...

Supplementary material 1 from: Penev L, Paton A, Nicolson N, Kirk P, Pyle RL, Whitton R, Georgiev T, Barker C, Hopkins C, Robert V, Biserkov J, Stoev P (2016) A common registration-to-publication automated pipeline for nomenclatural acts for higher plants (International Plant Names Index, IPNI), fungi (Index Fungorum, MycoBank) and animals (ZooBank). In: Michel E (Ed.) Anchoring Biodiversity Information: From Sherborn to the 21st century and beyond. ZooKeys 550: 233–246. https://doi.org/10.3897/zookeys.550.9551

Penev, Lyubomir
Paton, Alan
Nicolson, Nicola
Kirk, Paul
Pyle, Richard
Whitton, Robert
Georgiev, Teodor
Barker, Christine
Hopkins, Christopher
Robert, Vincent
Bisserkov, Jordan
Stoev, Pavel

January 2016

XML response of IPNI : Explanation note: XML query sent from Pensoft to IPNI on the day of acc...

Supplementary material 1 from: Funk V, Gostel M, Devine A, Kelloff C, Wurdack K, Tuccinardi C, Radosavljevic A, Peters M, Coddington J (2017) Guidelines for collecting vouchers and tissues intended for genomic work (Smithsonian Institution): Botany Best Practices. Biodiversity Data Journal 5: e11625. https://doi.org/10.3897/BDJ.5.e11625

Funk, Vicki
Gostel, Morgan
Devine, Amanda
Kelloff, Carol
Wurdack, Kenneth
Tuccinardi, Chris
Radosavljevic, Aleks
Peters, Melinda
Coddington, Jonathan

January 2018

Two lists of articles discussing various herbarium procedures and collecting technique

Supplementary material 8 from: Bowser ML, Brassfield R, Dziergowski A, Eskelin T, Hester J, Magness DR, McInnis M, Melvin T, Morton JM, Stone J (2020) Towards conserving natural diversity: A biotic inventory by observations, specimens, DNA barcoding and high-throughput sequencing methods. Biodiversity Data Journal 8: e50124. https://doi.org/10.3897/BDJ.8.e50124

Bowser, Matthew
Brassfield, Rebekah
Dziergowski, Annie
Eskelin, Todd
Hester, Jennifer
Magness, Dawn
McInnis, Mariah
Melvin, Tracy
Morton, John
Stone, Joel

March 2020

BOLD TaxonID Tree for SlikokOtu1170 generated by BOLD's Identification Engine, 26.December.201

Supplementary material 3 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

Comma-delimited ASCII data corresponding to specimens held in a series of museum collection

Supplementary material 2 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

These data are the summaries of data leaks in each of three dimensions for each of the bird and herb...

Supplementary material 1 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

This file offers detailed responses to two reviewers' comments, which were presented as very long, m...

Supplementary material 4 from: Dillen M, Groom Q, Chagnoux S, Güntsch A, Hardisty A, Haston E, Livermore L, Runnel V, Schulman L, Willemse L, Wu Z, Phillips S (2019) A benchmark dataset of herbarium specimen images with label data. Biodiversity Data Journal 7: e31817. https://doi.org/10.3897/BDJ.7.e31817

Dillen, Mathias
Groom, Quentin
Chagnoux, Simon
Güntsch, Anton
Hardisty, Alex
Haston, Elspeth
Livermore, Laurence
Runnel, Veljo
Schulman, Leif
Willemse, Luc
Wu, Zhengzhe
Phillips, Sarah

February 2019

This R script file contains the different scripts used to obtain metadata, join it, export it and pr...

Figure 1 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

Figure 1 Schematic summarizing the translation between biodiversity and biodiversity data, and how t...

Supplementary material 1 from: Dillen M, Groom Q, Chagnoux S, Güntsch A, Hardisty A, Haston E, Livermore L, Runnel V, Schulman L, Willemse L, Wu Z, Phillips S (2019) A benchmark dataset of herbarium specimen images with label data. Biodiversity Data Journal 7: e31817. https://doi.org/10.3897/BDJ.7.e31817

Dillen, Mathias
Groom, Quentin
Chagnoux, Simon
Güntsch, Anton
Hardisty, Alex
Haston, Elspeth
Livermore, Laurence
Runnel, Veljo
Schulman, Leif
Willemse, Luc
Wu, Zhengzhe
Phillips, Sarah

February 2019

Interactive version of the taxonomic coverage chart, Figure 2 in the article. Rendered using Krona (...

Supplementary material 1 from: Murray BR, Martin LJ, Phillips ML, Pyšek P (2017) Taxonomic perils and pitfalls of dataset assembly in ecology: a case study of the naturalized Asteraceae in Australia. NeoBiota 34: 1-20. https://doi.org/10.3897/neobiota.34.11139

Murray, Brad R.
Martin, Leigh J.
Phillips, Megan L.
Pyšek, Petr

February 2017

Final dataset : Explanation note: The final dataset (FD) of naturalized species and infra-spec...

Supplementary material 3 from: Penev L, Paton A, Nicolson N, Kirk P, Pyle RL, Whitton R, Georgiev T, Barker C, Hopkins C, Robert V, Biserkov J, Stoev P (2016) A common registration-to-publication automated pipeline for nomenclatural acts for higher plants (International Plant Names Index, IPNI), fungi (Index Fungorum, MycoBank) and animals (ZooBank). In: Michel E (Ed.) Anchoring Biodiversity Information: From Sherborn to the 21st century and beyond. ZooKeys 550: 233–246. https://doi.org/10.3897/zookeys.550.9551

Penev, Lyubomir
Paton, Alan
Nicolson, Nicola
Kirk, Paul
Pyle, Richard
Whitton, Robert
Georgiev, Teodor
Barker, Christine
Hopkins, Christopher
Robert, Vincent
Bisserkov, Jordan
Stoev, Pavel

January 2016

XML response of TaxPub : Explanation note: TaxPub XML of a ready-to-publish manuscript submitt...

Supplementary material 3 from: Bowser ML, Brassfield R, Dziergowski A, Eskelin T, Hester J, Magness DR, McInnis M, Melvin T, Morton JM, Stone J (2020) Towards conserving natural diversity: A biotic inventory by observations, specimens, DNA barcoding and high-throughput sequencing methods. Biodiversity Data Journal 8: e50124. https://doi.org/10.3897/BDJ.8.e50124

Bowser, Matthew
Brassfield, Rebekah
Dziergowski, Annie
Eskelin, Todd
Hester, Jennifer
Magness, Dawn
McInnis, Mariah
Melvin, Tracy
Morton, John
Stone, Joel

March 2020

This spreadsheet contains the original identifications of specimens shipped to Trevor Goward for ide...

Supplementary material 2 from: Murray BR, Martin LJ, Phillips ML, Pyšek P (2017) Taxonomic perils and pitfalls of dataset assembly in ecology: a case study of the naturalized Asteraceae in Australia. NeoBiota 34: 1-20. https://doi.org/10.3897/neobiota.34.11139

Murray, Brad R.
Martin, Leigh J.
Phillips, Megan L.
Pyšek, Petr

February 2017

Companion dataset : Explanation note: The companion dataset (CD) for naturalized Asteraceae in...

Figure 2 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Peterson, A. Townsend
Asase, Alex
Canhos, Dora
de Souza, Sidnei
Wieczorek, John

November 2018

Figure 2 Summary of patterns of completeness and incompleteness of information for 6 ornithological ...

Supplementary material 1: Global Biodiversity Information Facility: Taxa and Records from: Integrating and visualizing primary data from prospective and legacy taxonomic literature - Biodiversity Data Journal 3: e5063 (12 May 2015) https://doi.org/10.3897/BDJ.3.e5063

GBIF (5293459)

May 2018

All records in GBIF with taxonomic ranks (kingdom, phylum, class, order, and species), basis of reco...

Supplementary material 1 from: Penev L, Paton A, Nicolson N, Kirk P, Pyle RL, Whitton R, Georgiev T, Barker C, Hopkins C, Robert V, Biserkov J, Stoev P (2016) A common registration-to-publication automated pipeline for nomenclatural acts for higher plants (International Plant Names Index, IPNI), fungi (Index Fungorum, MycoBank) and animals (ZooBank). In: Michel E (Ed.) Anchoring Biodiversity Information: From Sherborn to the 21st century and beyond. ZooKeys 550: 233–246. https://doi.org/10.3897/zookeys.550.9551

Penev, Lyubomir
Paton, Alan
Nicolson, Nicola
Kirk, Paul
Pyle, Richard
Whitton, Robert
Georgiev, Teodor
Barker, Christine
Hopkins, Christopher
Robert, Vincent
Bisserkov, Jordan
Stoev, Pavel

January 2016

XML response of IPNI : Explanation note: XML query sent from Pensoft to IPNI on the day of acc...

Supplementary material 1 from: Funk V, Gostel M, Devine A, Kelloff C, Wurdack K, Tuccinardi C, Radosavljevic A, Peters M, Coddington J (2017) Guidelines for collecting vouchers and tissues intended for genomic work (Smithsonian Institution): Botany Best Practices. Biodiversity Data Journal 5: e11625. https://doi.org/10.3897/BDJ.5.e11625

Funk, Vicki
Gostel, Morgan
Devine, Amanda
Kelloff, Carol
Wurdack, Kenneth
Tuccinardi, Chris
Radosavljevic, Aleks
Peters, Melinda
Coddington, Jonathan

January 2018

Two lists of articles discussing various herbarium procedures and collecting technique

Supplementary material 8 from: Bowser ML, Brassfield R, Dziergowski A, Eskelin T, Hester J, Magness DR, McInnis M, Melvin T, Morton JM, Stone J (2020) Towards conserving natural diversity: A biotic inventory by observations, specimens, DNA barcoding and high-throughput sequencing methods. Biodiversity Data Journal 8: e50124. https://doi.org/10.3897/BDJ.8.e50124

Bowser, Matthew
Brassfield, Rebekah
Dziergowski, Annie
Eskelin, Todd
Hester, Jennifer
Magness, Dawn
McInnis, Mariah
Melvin, Tracy
Morton, John
Stone, Joel

March 2020

BOLD TaxonID Tree for SlikokOtu1170 generated by BOLD's Identification Engine, 26.December.201

Supplementary material 4 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Abstract

Extracted data

Supplementary material 4 from: Townsend Peterson A, Asase A, Canhos D, de Souza S, Wieczorek J (2018) Data Leakage and Loss in Biodiversity Informatics. Biodiversity Data Journal 6: e26826. https://doi.org/10.3897/BDJ.6.e26826

Abstract

Extracted data

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