bioalcidae, samjs and vcffilterjs: object-oriented formatters and filters for bioinformatics files Article Swipe
Pierre Lindenbaum
,
Richard Redon
·
YOU?
·
· 2017
· Open Access
·
· DOI: https://doi.org/10.1093/bioinformatics/btx734
YOU?
·
· 2017
· Open Access
·
· DOI: https://doi.org/10.1093/bioinformatics/btx734
Motivation Reformatting and filtering bioinformatics files are common tasks for bioinformaticians. Standard Linux tools and specific programs are usually used to perform such tasks but there is still a gap between using these tools and the programming interface of some existing libraries. Results In this study, we developed a set of tools namely bioalcidae, samjs and vcffilterjs that reformat or filter files using a JavaScript engine or a pure java expression and taking advantage of the java API for high-throughput sequencing data (htsjdk). Availability and implementation https://github.com/lindenb/jvarkit.
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- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1093/bioinformatics/btx734
- https://academic.oup.com/bioinformatics/article-pdf/34/7/1224/25119550/btx734.pdf
- OA Status
- bronze
- Cited By
- 39
- References
- 7
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W2768718979
All OpenAlex metadata
Raw OpenAlex JSON
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https://openalex.org/W2768718979Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1093/bioinformatics/btx734Digital Object Identifier
- Title
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bioalcidae, samjs and vcffilterjs: object-oriented formatters and filters for bioinformatics filesWork title
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2017Year of publication
- Publication date
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2017-11-23Full publication date if available
- Authors
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Pierre Lindenbaum, Richard RedonList of authors in order
- Landing page
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https://doi.org/10.1093/bioinformatics/btx734Publisher landing page
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https://academic.oup.com/bioinformatics/article-pdf/34/7/1224/25119550/btx734.pdfDirect link to full text PDF
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YesWhether a free full text is available
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bronzeOpen access status per OpenAlex
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https://academic.oup.com/bioinformatics/article-pdf/34/7/1224/25119550/btx734.pdfDirect OA link when available
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Java, Computer science, JavaScript, Interface (matter), Programming language, Filter (signal processing), Set (abstract data type), Application programming interface, Operating system, Throughput, Software, Object-oriented programming, Computer vision, Maximum bubble pressure method, Wireless, BubbleTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
39Total citation count in OpenAlex
- Citations by year (recent)
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2025: 5, 2024: 7, 2023: 1, 2022: 12, 2021: 4Per-year citation counts (last 5 years)
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7Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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