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Software engineering for scientific big data analysis
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Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1007/978-3-319-35122-3_17openalex-snapshot
Pragmatic Software Reuse in Bioinformatics: How Can Social Network Information Help?
inferredcites →https://doi.org/10.1016/j.jbiotec.2017.07.017openalex-snapshot
The SeqAn C++ template library for efficient sequence analysis: A resource for programmers
inferredcites →https://doi.org/10.1038/nbt.3820openalex-snapshot
Nextflow enables reproducible computational workflows
inferredcites →https://doi.org/10.1038/s41592-018-0046-7openalex-snapshot
Bioconda: sustainable and comprehensive software distribution for the life sciences
inferredcites →https://doi.org/10.1080/21655979.2015.1050162openalex-snapshot
Engineering bioinformatics: building reliability, performance and productivity into bioinformatics software
inferredcites →https://doi.org/10.1093/bioinformatics/btn397openalex-snapshot
BioJava: an open-source framework for bioinformatics
inferredcites →https://doi.org/10.1093/bioinformatics/btp163openalex-snapshot
Biopython: freely available Python tools for computational molecular biology and bioinformatics
inferredcites →https://doi.org/10.1093/bioinformatics/bts167openalex-snapshot
Bpipe: a tool for running and managing bioinformatics pipelines
inferredcites →https://doi.org/10.1093/bioinformatics/bts480openalex-snapshot
Snakemake—a scalable bioinformatics workflow engine
inferredcites →https://doi.org/10.1093/bioinformatics/btt113openalex-snapshot
EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats
inferredcites →https://doi.org/10.1093/molbev/msy084openalex-snapshot
Biology Needs Evolutionary Software Tools: Let’s Build Them Right
inferredcites →https://doi.org/10.1093/nar/gkt328openalex-snapshot
The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud
inferredcites →https://doi.org/10.1093/nar/gky379openalex-snapshot
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update
inferredcites →https://doi.org/10.1101/gr.361602openalex-snapshot
The Bioperl Toolkit: Perl Modules for the Life Sciences
inferredcites →https://doi.org/10.1186/s13742-016-0135-4openalex-snapshot
Tools and techniques for computational reproducibility
inferredcites →https://doi.org/10.12688/f1000research.15140.1openalex-snapshot
Recommendations for the packaging and containerizing of bioinformatics software
inferredcites →https://doi.org/10.12688/f1000research.15140.2openalex-snapshot
Recommendations for the packaging and containerizing of bioinformatics software
inferredcites →https://doi.org/10.13140/rg.2.1.3547.6561openalex-snapshot
Cuneiform: A Functional Language for Large Scale Scientific Data Analysis
inferredcites →https://doi.org/10.1371/journal.pbio.1001745openalex-snapshot
Best Practices for Scientific Computing
inferredcites →https://doi.org/10.1371/journal.pcbi.1002802openalex-snapshot
Ten Simple Rules for the Open Development of Scientific Software
inferredcites →https://doi.org/10.1371/journal.pcbi.1003285openalex-snapshot
Ten Simple Rules for Reproducible Computational Research
inferredcites →https://doi.org/10.1371/journal.pcbi.1004947openalex-snapshot
Ten Simple Rules for Taking Advantage of Git and GitHub
inferredcites →https://doi.org/10.1371/journal.pcbi.1005412openalex-snapshot
Ten simple rules for making research software more robust
inferredcites →https://doi.org/10.2307/2391948openalex-snapshot
The Psychology of Computer Programming.
inferredcites →https://doi.org/10.5860/choice.36-4535openalex-snapshot
The psychology of computer programming
inferredcites →https://doi.org/10.7554/elife.07009openalex-snapshot
Anatomy of BioJS, an open source community for the life sciences
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.5281/zenodo.4589572openalex-extracted
Technical Debt in the Peer-Review Documentation of R Packages: a rOpenSci Case Study
inferred← citeshttps://doi.org/10.1007/978-981-16-5812-9_11openalex-snapshot
Access and Visualise High Quality Gene Expression Data with Stemformatics
inferred← citeshttps://doi.org/10.1016/b978-0-323-95502-7.00023-3openalex-snapshot
Computational Pipelines and Workflows in Bioinformatics
inferred← citeshttps://doi.org/10.1016/j.eswa.2024.124398openalex-snapshot
Global quantitative analysis and visualization of big data and medical devices based on bibliometrics
inferred← citeshttps://doi.org/10.1093/gigascience/giad025openalex-snapshot
DivBrowse—interactive visualization and exploratory data analysis of variant call matrices
inferred← citeshttps://doi.org/10.1093/gigascience/giad115openalex-snapshot
A multi-omics data analysis workflow packaged as a FAIR Digital Object
inferred← citeshttps://doi.org/10.1093/molbev/msy084openalex-snapshot
Biology Needs Evolutionary Software Tools: Let’s Build Them Right
inferred← citeshttps://doi.org/10.1101/2020.08.12.243766openalex-snapshot
MultiPaths: a Python framework for analyzing multi-layer biological networks using diffusion algorithms
inferred← citeshttps://doi.org/10.1101/2023.06.07.543986openalex-snapshot
A Multi-omics Data Analysis Workflow Packaged as a FAIR Digital Object
inferred← citeshttps://doi.org/10.1108/el-08-2021-0157openalex-snapshot
Process-driven quality improvement for scientific data based on information product map
inferred← citeshttps://doi.org/10.1108/mrr-09-2021-0648openalex-snapshot
Big data analysis for decision-making processes: challenges and opportunities for the management of health-care organizations
inferred← citeshttps://doi.org/10.1109/e-science58273.2023.10254898openalex-snapshot
Contract-Driven Design of Scientific Data Analysis Workflows
inferred← citeshttps://doi.org/10.1109/msr52588.2021.00032openalex-snapshot
Technical Debt in the Peer-Review Documentation of R Packages: a rOpenSci Case Study
inferred← citeshttps://doi.org/10.1109/scw63240.2024.00256openalex-snapshot
Towards Generating Contracts for Scientific Data Analysis Workflows
inferred← citeshttps://doi.org/10.1111/2041-210x.14327openalex-snapshot
A FAIR and modular image‐based workflow for knowledge discovery in the emerging field of imageomics
inferred← citeshttps://doi.org/10.1145/3701625.3701642openalex-snapshot
Quality of Big Data Systems: a Systematic Review of Practices Methods and Tools
inferred← citeshttps://doi.org/10.11603/mie.1996-1960.2019.3.10429openalex-snapshot
ПЕРСПЕКТИВИ ТА ПРОБЛЕМИ ВИКОРИСТАННЯ ТЕХНОЛОГІЙ BIG DATA В МЕДИЦИНІ
inferred← citeshttps://doi.org/10.1161/jaha.123.029667openalex-snapshot
iCPET Calculator: A Web‐Based Application to Standardize the Calculation of Alpha Distensibility in Patients With Pulmonary Arterial Hypertension
inferred← citeshttps://doi.org/10.12688/f1000research.53698.1openalex-snapshot
Approaches for containerized scientific workflows in cloud environments with applications in life science
inferred← citeshttps://doi.org/10.1371/journal.pcbi.1008464openalex-snapshot
Drug2ways: Reasoning over causal paths in biological networks for drug discovery
inferred← citeshttps://doi.org/10.1371/journal.pcbi.1008770openalex-snapshot
Principles for data analysis workflows
inferred← citeshttps://doi.org/10.1371/journal.pcbi.1009823openalex-snapshot
Ten simple rules for making a software tool workflow-ready
inferred← citeshttps://doi.org/10.20944/preprints202001.0378.v1openalex-snapshot
Approaches for Containerized Scientific Workflows in Cloud Environments with Applications in Life Science
inferred← citeshttps://doi.org/10.20944/preprints202310.0102.v1openalex-snapshot
Withdrawn: Reproducing Bioinformatics Experiments: A Case Study Using the Environment Code-First Framework
inferred← citeshttps://doi.org/10.26668/businessreview/2024.v9i5.4662openalex-snapshot
INCREASING THE REPRODUCIBILITY OF SCIENTIFIC RESEARCH WORKS: A CASE STUDY USING THE ENVIRONMENT CODE-FIRST FRAMEWORK
inferred← citeshttps://doi.org/10.3233/jnr-220002openalex-snapshot
Guidelines for collaborative development of sustainable data treatment software
inferred← citeshttps://doi.org/10.3389/fgene.2019.01203openalex-snapshot
The Impact of Pathway Database Choice on Statistical Enrichment Analysis and Predictive Modeling
inferred← citeshttps://doi.org/10.36227/techrxiv.24522940openalex-snapshot
A Review Report on Big Data Analytics
inferred← citeshttps://doi.org/10.36227/techrxiv.24522940.v1openalex-snapshot
A Review Report on Big Data Analytics
inferred← citeshttps://doi.org/10.3758/s13428-024-02390-8openalex-snapshot
A survey of experimental stimulus presentation code sharing in major areas of psychology
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