cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.16413716
title: An Exploratory Study of Documentation Strategies for Product Features in Popular GitHub Projects [Replication Package]

description: Artefact Summary

This repository contains the replication package for the paper 'An Exploratory Study of Documentation Strategies for Product Features in Popular GitHub Projects,' presented at the 38th IEEE International Conference on Software Maintenance and Evolution (ICSME'22).

The purpose of the package is to facilitate the verification and reproduction of the study results.It provides all computational notebooks used to collect and analyse data, as well as the slides of the conference presentation.

Paper Abstract

[Background] In large open-source software projects, development knowledge is often fragmented across multiple artefacts and contributors such that individual stakeholders are generally unaware of the full breadth of the product features. However, users want to know what the software is capable of, while contributors need to know where to fix, update, and add features. [Objective] This work aims at understanding how feature knowledge is documented in GitHub projects and how it is linked (if at all) to the source code. [Method] We conducted an in-depth qualitative exploratory content analysis of 25 popular GitHub repositories that provided the documentation artefacts recommended by GitHub’s Community Standards indicator. We extracted strategies used to document software features in textual artefacts and which strategies were used to link the feature documentation with source code. [Results] We observed feature documentation in all studied projects in artefacts such as READMEs, wikis, and website resource files. However, the features were often described in an unstructured way. Additionally, tracing techniques to connect feature documentation and source code were rarely used. [Conclusions] Our results suggest a lacking (or a low-prioritised) feature documentation in open-source projects, little use of normalised structures, and a rare explicit referencing to source code. As a result, product feature traceability is likely to be very limited, and maintainability to suffer over time.

References

The published paper is available on IEEE Xplore and the preprint on arXiv.
DOI: 10.5281/zenodo.6914642
title: An Exploratory Study of Documentation Strategies for Product Features in Popular GitHub Projects [Replication Package]

description: Artefact Summary

This repository contains the replication package for the paper 'An Exploratory Study of Documentation Strategies for Product Features in Popular GitHub Projects,' presented at the 38th IEEE International Conference on Software Maintenance and Evolution (ICSME'22).

The purpose of the package is to facilitate the verification and reproduction of the study results.It provides all computational notebooks used to collect and analyse data, as well as the slides of the conference presentation.

Paper Abstract

[Background] In large open-source software projects, development knowledge is often fragmented across multiple artefacts and contributors such that individual stakeholders are generally unaware of the full breadth of the product features. However, users want to know what the software is capable of, while contributors need to know where to fix, update, and add features. [Objective] This work aims at understanding how feature knowledge is documented in GitHub projects and how it is linked (if at all) to the source code. [Method] We conducted an in-depth qualitative exploratory content analysis of 25 popular GitHub repositories that provided the documentation artefacts recommended by GitHub’s Community Standards indicator. We extracted strategies used to document software features in textual artefacts and which strategies were used to link the feature documentation with source code. [Results] We observed feature documentation in all studied projects in artefacts such as READMEs, wikis, and website resource files. However, the features were often described in an unstructured way. Additionally, tracing techniques to connect feature documentation and source code were rarely used. [Conclusions] Our results suggest a lacking (or a low-prioritised) feature documentation in open-source projects, little use of normalised structures, and a rare explicit referencing to source code. As a result, product feature traceability is likely to be very limited, and maintainability to suffer over time.

References

The published paper is available on IEEE Xplore and the preprint on arXiv.
DOI: 10.15468/dl.yn2fa9
title: Occurrence Download

description: A dataset containing 45 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Material sample)"
 ]
 }
 },
 "TaxonKey is Ficus subcostata",
 "Continent is one of (Africa)",
 "Year is greater than or equal to 1900"
 ]
}

 The dataset includes 45 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040253-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16413762
title: Can Developers Prompt? A Controlled Experiment for Code Documentation Generation [Replication Package]

description: Artifact Summary

This repository contains the replication package for the paper 'Can Developers Prompt? A Controlled Experiment for Code Documentation Generation,' presented at the 40th IEEE International Conference on Software Maintenance and Evolution (ICSME'24).

The purpose of the package is to facilitate the verification and reproduction of the study results. It provides all data of the controlled experiment, the developed Visual Studio Code (VS Code) extension, as well as the slides of the conference presentations.

Paper Abstract

Large language models (LLMs) bear great potential for automating tedious development tasks such as creating and maintaining code documentation. However, it is unclear to what extent developers can effectively prompt LLMs to create concise and useful documentation. We report on a controlled experiment with 20 professionals and 30 computer science students tasked with code documentation generation for two Python functions. The experimental group freely entered ad-hoc prompts in a ChatGPT-like extension of Visual Studio Code, while the control group executed a predefined few-shot prompt. Our results reveal that professionals and students were unaware of or unable to apply prompt engineering techniques. Especially students perceived the documentation produced from ad-hoc prompts as significantly less readable, less concise, and less helpful than documentation from prepared prompts. Some professionals produced higher quality documentation by just including the keyword Docstring in their ad-hoc prompts. While students desired more support in formulating prompts, professionals appreciated the flexibility of ad-hoc prompting. Participants in both groups rarely assessed the output as perfect. Instead, they understood the tools as support to iteratively refine the documentation. Further research is needed to understand which prompting skills and preferences developers have and which support they need for certain tasks.

References

The published paper is available on IEEE Xplore and the preprint on arXiv.
DOI: 10.17900/cb.cba.jun2022.v1
title: Central Balance Sheet Annual Data. Extraction: June 2022

description: Self-administered questionnaire: Web-based
description: CB is constructed and made available by Banco de Portugal. This data set is mostly based on the information reported through the Annex A of Informação Empresarial Simplificada (IES, Simplified Corporate Information). IES contains tax, accounting and statistical information and firms are required to submit it electronically to the Ministry of Finance every year.
description: CB covers the population of all Portuguese non-financial corporations. The classification of non-financial corporations follows the guidelines on the “European System of National and Regional Accounts” (ESA 2010). It includes market producers mainly dedicated to the production of non-financial goods and/or services, such as private and public corporations, cooperatives and partnerships recognized as independent legal entities, non-profit institutions or associations serving non-financial corporations, public independent legal entities, private and public quasi-corporations, and head offices.
DOI: 10.5281/zenodo.13127237
title: Can Developers Prompt? A Controlled Experiment for Code Documentation Generation [Replication Package]

description: Artifact Summary

This repository contains the replication package for the paper 'Can Developers Prompt? A Controlled Experiment for Code Documentation Generation,' presented at the 40th IEEE International Conference on Software Maintenance and Evolution (ICSME'24).

The purpose of the package is to facilitate the verification and reproduction of the study results. It provides all data of the controlled experiment, the developed Visual Studio Code (VS Code) extension, as well as the slides of the conference presentations.

Paper Abstract

Large language models (LLMs) bear great potential for automating tedious development tasks such as creating and maintaining code documentation. However, it is unclear to what extent developers can effectively prompt LLMs to create concise and useful documentation. We report on a controlled experiment with 20 professionals and 30 computer science students tasked with code documentation generation for two Python functions. The experimental group freely entered ad-hoc prompts in a ChatGPT-like extension of Visual Studio Code, while the control group executed a predefined few-shot prompt. Our results reveal that professionals and students were unaware of or unable to apply prompt engineering techniques. Especially students perceived the documentation produced from ad-hoc prompts as significantly less readable, less concise, and less helpful than documentation from prepared prompts. Some professionals produced higher quality documentation by just including the keyword Docstring in their ad-hoc prompts. While students desired more support in formulating prompts, professionals appreciated the flexibility of ad-hoc prompting. Participants in both groups rarely assessed the output as perfect. Instead, they understood the tools as support to iteratively refine the documentation. Further research is needed to understand which prompting skills and preferences developers have and which support they need for certain tasks.

References

The published paper is available on IEEE Xplore and the preprint on arXiv.
DOI: 10.15468/dl.ufwhdp
title: Occurrence Download

description: A dataset containing 17227 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Spiraea douglasii"
 ]
}

 The dataset includes 17227 records from 340 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040252-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9scxu5
title: Occurrence Download

description: A dataset containing 2846 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sporobolus ioclados"
 ]
}

 The dataset includes 2846 records from 73 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040254-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g6znh8
title: Occurrence Download

description: A dataset containing 1296 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Asparagus asparagoides",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1296 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040259-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7284/164885
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise FKt241214 using a Hawaii UHDAS instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164778
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise FKt241214 using a SeaBird SBE-911+ instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164793
title: Expendable Probe data collected during research cruise FKt241214 using a Turo Quoll instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.15468/dl.9svvzd
title: Occurrence Download

description: A dataset containing 586 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Asparagus asparagoides",
 "Country is New Zealand",
 "HasCoordinate is true"
 ]
}

 The dataset includes 586 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040258-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7284/164783
title: Fluorometer data collected during research cruise FKt241214 using a WETLabs ECO-FL instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164784
title: Fluorometer data collected during research cruise FKt241214 using a WETLabs ECO-FL instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164779
title: Gyrocompass data collected during research cruise FKt241214 using a Sperry NAVIGAT X MK 1 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164780
title: Gyrocompass data collected during research cruise FKt241214 using a Sperry NAVIGAT X MK 1 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164781
title: Gyrocompass data collected during research cruise FKt241214 using a Sperry NAVIGAT X MK 1 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.15468/dl.vktna7
title: Occurrence Download

description: A dataset containing 31352 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Asparagus asparagoides",
 "Country is Australia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 31352 records from 50 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040256-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/12567476
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.7284/164795
title: INS (Inertial Navigation System) data collected during research cruise FKt241214 using a Applanix POS/MV-320 V5 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164796
title: INS (Inertial Navigation System) data collected during research cruise FKt241214 using a Applanix POS/MV-320 V5 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164789
title: Meteorological Station data collected during research cruise FKt241214 using a Paroscientific MET4A instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164797
title: Multibeam Echosounder data collected during research cruise FKt241214 using a Kongsberg EM124 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164798
title: Multibeam Echosounder data collected during research cruise FKt241214 using a Kongsberg EM712 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164799
title: Multibeam Echosounder data collected during research cruise FKt241214 using a Kongsberg EM124 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164800
title: Multibeam Echosounder data collected during research cruise FKt241214 using a Kongsberg EM712 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164790
title: pH data collected during research cruise FKt241214 using a SUNBURST AFT-pH instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164794
title: Singlebeam Echosounder data collected during research cruise FKt241214 using a Kongsberg SBP-29 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164782
title: Splitbeam Echosounder data collected during research cruise FKt241214 using a Kongsberg EK80 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164791
title: SSV (Sound Speed Velocimeter) data collected during research cruise FKt241214 using a Valeport MiniSVS instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.15468/dl.egxm5f
title: Occurrence Download

description: A dataset containing 7266 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Amaranthus retroflexus",
 "Country is Russian Federation",
 "HasCoordinate is true"
 ]
}

 The dataset includes 7266 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040260-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7284/164792
title: SSV (Sound Speed Velocimeter) data collected during research cruise FKt241214 using a Valeport MiniSVS instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164786
title: Transmissometer data collected during research cruise FKt241214 using a SeaBird C-Star instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164787
title: TSG (Thermosalinograph) data collected during research cruise FKt241214 using a SeaBird SBE-45 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/164788
title: TSG (Thermosalinograph) data collected during research cruise FKt241214 using a SeaBird SBE-45 instrument system onboard the platform RV Falkor (too)

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.15468/dl.87q5g3
title: Occurrence Download

description: A dataset containing 369 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Amaranthus retroflexus",
 "Country is Slovakia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 369 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040262-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5066/p9nm9e9m
title: Microbial Community and N-cycling gene abundance from Ponds and Groundwater on Cape Cod, MA (2015 - 2018)

description: Surface water, pore water, pond bottom sediments, and groundwater were sampled within and downgradient from five groundwater flow-through ponds that ranged from oligotrophic to eutrophic in Cape Cod, Massachusetts during different seasons from 2015 &ndash; 2018. The sampled ponds included Ashumet, Santuit, Snake, Shubael, and Longs. Pore water was collected between 15 to 100 cm below the pond bottoms on the upgradient and downgradient sides of the ponds. Groundwater was collected on the downgradient side where the pond water recharges the groundwater resulting in a &ldquo;pond shadow&rdquo;. Within the pond shadow, groundwater is under the direct influence of surface water. The pond shadows were sampled vertically and at various distances from their respective surface water sources. This set of data provides the microbial water quality data derived from the collection of DNA from this set of water and sediment samples. Data includes concentrations of DNA, N-cycling gene abundance for bacterial amoA, narG, nirK, and nosZ, taxonomy, and alpha and beta diversity from the amplification of 16S rRNA.
DOI: 10.5281/zenodo.16372355
title: Giant endogenous viral elements in the genome of the model protist Euglena gracilis reveal past interactions with giant viruses

description: This is the data availability repository for the paper.

It contains the supplementary dataset, supplementary figures and the BAM file used for methylation calling.

For generating the BAM file, the nanopore .pod5 files were basecalled and mapped to the Euglena genome assembly on NCBI. For detailed methods, see methods section in the paper. 

Supplementary figure information:

S1: Histogram of GC% of GEVEs (blue) with mean at 32% and a 200 Kbp window of Euglena gracilis (red) with mean at 47%. P-value < 0.005

S2: BLAST dotplot of CP83_f against itself showing duplications in the central 80 Kbp region

S3: Heatmap showing screening of 95 publicly available transcriptomes against all Euglena GEVE proteins

S4: Distribution of hits against recombinases expressed in the transcriptome of the Euglena GEVEs across the Euglena genome

S5: Mapped reads from 48 freshwater metagenomes across CP92_2 GEVE with 100 kb flanking region

 

Supplementary Dataset information:

Dataset 1: eggnog_annotations

Dataset 2: HHPred_predictions
DOI: 10.15468/dl.gkb5uz
title: Occurrence Download

description: A dataset containing 141 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Anas bahamensis",
 "Country is Sweden",
 "HasCoordinate is true"
 ]
}

 The dataset includes 141 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040261-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16413752
title: 2025-Ga2O3-O-Diffusion
DOI: 10.5281/zenodo.16413753
title: 2025-Ga2O3-O-Diffusion
DOI: 10.15468/dl.tcva2q
title: Occurrence Download

description: A dataset containing 53379 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is one of (Saint Vincent and the Grenadines, Grenada)"
 ]
}

 The dataset includes 53379 records from 425 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040249-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.