Výsledky vyhledávání - Community-driven Bioinformatics Workflows

A standard workflow for community-driven manual curation of Strongyloides genome annotations.

Autoři: Bryant, Astra S. Akimori, Damia Stoltzfus, Jonathan D. C. a další

Zdroj: Philosophical Transactions of the Royal Society B: Biological Sciences. 1/15/2024, Vol. 379 Issue 1894, p1-12. 12p.

Témata: *GENE families, *BIOINFORMATICS software, *GUANYLATE cyclase, *FUNCTIONAL genomics, *ANNOTATIONS

nf-core: Scalable and reproducible bioinformatics workflows using Nextflow and nf-core

Autoři: nf-core (9523169) Alexander Peltzer (3499007)

Témata: Bioinformatics, Nextflow, nf-core, Open Science, FAIR, Community-driven Bioinformatics Workflows, NGS

Relation: https://figshare.com/articles/presentation/nf-core_Scalable_and_reproducible_bioinformatics_workflows_using_Nextflow_and_nf-core/13142561

Dostupnost: https://doi.org/10.6084/m9.figshare.13142561.v1

A standard workflow for community-driven manual curation of Strongyloides genome annotations.

Autoři: Bryant, Astra Akimori, Damia Stoltzfus, Jonathan a další

Zdroj: Philosophical Transactions of the Royal Society B: Biological Sciences; vol 379, iss 1894

Témata: Strongyloides, WormBase, community curation, comparative genomics, genome annotation, nematodes, Animals, Phylogeny, Workflow, Databases, Genetic, Genome, Molecular Sequence Annotation, article

URL: https://escholarship.org/uc/item/18z4n8dr
https://escholarship.org/content/qt18z4n8dr/qt18z4n8dr.pdf

BioAgents: Bridging the gap in bioinformatics analysis with multi-agent systems.

Autoři: Mehandru, Nikita Hall, Amanda K. Melnichenko, Olesya a další

Zdroj: Scientific Reports; 11/7/2025, Vol. 15 Issue 1, p1-11, 11p

Témata: BIOINFORMATICS, GENOMICS, LANGUAGE models, ALGORITHMS, MULTIAGENT systems

PDBe-KB: a community-driven resource for structural and functional annotations

Autoři: Varadi, Mihaly Berrisford, John Deshpande, Mandar a další

Přispěvatelé: Varadi, Mihaly Berrisford, John Deshpande, Mandar a další

Zdroj: Nucleic Acids Res
D353
D344

Témata: 0301 basic medicine, name=Genetics, Knowledge Bases, 05 Environmental Sciences, Workflow, Databases, User-Computer Interface, 03 medical and health sciences, Database Issue, PDBe-KB consortium, Databases, Protein, Settore BIO/11 - BIOLOGIA MOLECOLARE, Internet, 0303 health sciences, Research, Protein, Proteins, bioinformatics, 06 Biological Sciences, Europe, 08 Information and Computing Sciences, Developmental Biology

Popis souboru: application/pdf; Print; D353

Přístupová URL adresa: https://academic.oup.com/nar/article-pdf/48/D1/D344/31697370/gkz853.pdf
https://pubmed.ncbi.nlm.nih.gov/31584092
https://kar.kent.ac.uk/84726/1/gkz853.pdf
https://orbilu.uni.lu/handle/10993/40652
https://research.iitj.ac.in/publication/pdbe-kb-a-community-driven-resource-for-structural-and-functional
https://mdanderson.elsevierpure.com/en/publications/pdbe-kb-a-community-driven-resource-for-structural-and-functional
https://www.muni.cz/vyzkum/publikace/1730679
https://doi.org/10.1093/nar/gkz853
https://academic.oup.com/nar/article/48/D1/D344/5580911
http://hdl.handle.net/10044/1/77984
https://biblio.vub.ac.be/vubir/pdbekb-a-communitydriven-resource-for-structural-and-functional-annotations(f1aa16c2-04cf-49e0-9555-47d7b2ae3bbf).html
https://discovery-pp.ucl.ac.uk/id/eprint/10094257/

2020-04-03-nf-core-general.pdf

Autoři: nf-core (9523169) Alexander Peltzer (9563737)

Témata: Computational Biology, nf-core, FAIR, Nextflow, Community-driven Bioinformatics Workflows

Relation: https://figshare.com/articles/presentation/2020-04-03-nf-core-general_pdf/13142672

Dostupnost: https://doi.org/10.6084/m9.figshare.13142672.v1

BioShaDock: a community driven bioinformatics shared Docker-based tools registry

Autoři: Moreews, François Sallou, Olivier Ménager, Hervé a další

Přispěvatelé: Moreews, François Sallou, Olivier Ménager, Hervé a další

Zdroj: F1000Res

Témata: 0301 basic medicine, workflow, Software Tool Article, 0206 medical engineering, bioinformatics, 02 engineering and technology, registry, container, 16. Peace & justice, docker, 03 medical and health sciences, meta-données, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [INFO.INFO-BI] Computer Science [cs]/Bioinformatics [q-bio.QM]

Popis souboru: application/pdf

Přístupová URL adresa: https://f1000research.com/articles/4-1443/v1/pdf
https://pubmed.ncbi.nlm.nih.gov/26913191
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4743153/
https://pubmed.ncbi.nlm.nih.gov/26913191/
https://f1000research.com/articles/4-1443/
https://europepmc.org/article/PMC/PMC4743153
https://hal.inria.fr/hal-01243520
https://paperity.org/p/246990562/bioshadock-a-community-driven-bioinformatics-shared-docker-based-tools-registry-version-1
https://inria.hal.science/hal-01243520v1
https://doi.org/10.12688/f1000research.7536.1
https://inria.hal.science/hal-01243520v1/document

BOSC 2019, the 20th annual Bioinformatics Open Source Conference.

Autoři: Harris, Nomi Cock, Peter Fields, Christopher a další

Témata: bioinformatics, conference, open science, open source, Computational Biology, Congresses as Topic, Software, Workflow

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/7sr1p5j8
https://escholarship.org/content/qt7sr1p5j8/qt7sr1p5j8.pdf

A Simple Standard for Sharing Ontological Mappings (SSSOM)

Autoři: Matentzoglu, Nicolas Balhoff, James P Bello, Susan M a další

Zdroj: Database. 2022

Témata: 4605 Data Management and Data Science (for-2020), 46 Information and Computing Sciences (for-2020), Data Science (rcdc), Networking and Information Technology R&D (NITRD) (rcdc), Data Management (mesh), Databases, Factual (mesh), Metadata (mesh), Semantic Web (mesh), Workflow (mesh), Databases, Factual (mesh), Workflow (mesh), Metadata (mesh), Semantic Web (mesh), Data Management (mesh), Data Management (mesh), Databases, Factual (mesh), Metadata (mesh), Semantic Web (mesh), Workflow (mesh), 0804 Data Format (for), 0807 Library and Information Studies (for), 3102 Bioinformatics and computational biology (for-2020), 4605 Data management and data science (for-2020)

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/4hx8w0kk
https://escholarship.org/content/qt4hx8w0kk/qt4hx8w0kk.pdf

Next-generation sequencing and bioinformatics in rare movement disorders.

Autoři: Zech, Michael Winkelmann, Juliane

Zdroj: Nature Reviews Neurology. Feb2024, Vol. 20 Issue 2, p114-126. 13p.

Témata: *NUCLEOTIDE sequencing, *MOVEMENT disorders, *DATA integration, *GENETIC disorder diagnosis, *BIOINFORMATICS, *EXOMES

Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics.

Autoři: Baichoo, Shakuntala Souilmi, Yassine Panji, Sumir a další

Zdroj: BMC Bioinformatics; 11/29/2018, Vol. 19 Issue 1, p1-13, 13p, 4 Diagrams

Témata: BIOINFORMATICS, GENOMICS, SINGLE nucleotide polymorphisms, HETEROGENEOUS computing, NUCLEOTIDE sequence

Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows

Autoři: Fonds National de la Recherche - FnR [sponsor] ERC-CoG 863664 [sponsor] Van Den Bossche, Tim a další

Témata: Bacteria, Metaproteomics, Mass spectronomy, Microbiome, info:eu-repo/semantics/article

URL: http://orbilu.uni.lu/handle/10993/49679
http://orbilu.uni.lu/bitstream/10993/49679/1/VanDenBosche2021.NatComm.CAMPI.pdf

Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows

Autoři: Van Den Bossche, T. Kunath, B.J. Schallert, K. a další

Zdroj: ISSN: 2041-1723

URL: https://www.ufz.de/index.php?en=20939&ufzPublicationIdentifier=25547

BioShake: a Haskell EDSL for bioinformatics workflows.

Autoři: Bedő, Justin

Zdroj: PeerJ; Jul2019, p1-13, 13p

Témata: WORKFLOW management, WORKFLOW management systems, REPRODUCIBLE research, RESEARCH management

microGalaxy: A gateway to tools, workflows, and training for reproducible and FAIR analysis of microbial data: A gateway to tools, workflows, and training for reproducible and FAIR analysis of microbial data

Autoři: Nasr, Engy Amato, Pierre Bhardwaj, Anshu a další

Přispěvatelé: Nasr, Engy Amato, Pierre Bhardwaj, Anshu a další

Zdroj: bioRxiv

Témata: [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, Article

Přístupová URL adresa: https://pubmed.ncbi.nlm.nih.gov/39764050

Community-driven computational biology with Debian Linux.

Autoři: Möller, Steffen Krabbenhöft, Hajo Nils Tille, Andreas a další

Zdroj: BMC Bioinformatics. Jan2010 Supplement 12, Vol. 11, p1-6. 6p. 1 Diagram.

Témata: *OPEN source software, *BIOINFORMATICS, *MEDICAL informatics, *CLOUD computing, *COMPUTATIONAL biology

WORKSHOP: Unlocking nf-core - customising workflows for your research

Autoři: Samaha, Georgina orcid:0000-0003-0419- Willet, Cali a další

Témata: Bioinformatics, Workflows, Nextflow, nf-core

Relation: https://zenodo.org/communities/australianbiocommons-training/; https://zenodo.org/records/8026170; oai:zenodo.org:8026170; https://doi.org/10.5281/zenodo.8026170

Dostupnost: https://doi.org/10.5281/zenodo.8026170
https://zenodo.org/records/8026170

Whole genome sequencing in the palm of your hand: how to implement a MinION Galaxy-based workflow in a food safety laboratory for rapid Salmonella spp. serotyping, virulence, and antimicrobial resistance gene identification

Autoři: Alexandre Lamas Alejandro Garrido-Maestu Alberto Prieto a další

Zdroj: Frontiers in Microbiology, Vol 14 (2023)

Témata: Salmonella spp., whole genome sequencing, MinION, Flongle, serotyping, antimicrobial resistance, Microbiology, QR1-502

Popis souboru: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmicb.2023.1254692/full; https://doaj.org/toc/1664-302X

Přístupová URL adresa: https://doaj.org/article/48faacd923944237908f1ee8a6489eba

BOSC 2025, the 26th Bioinformatics Open Source Conference

Autoři: Nomi L. Harris Karsten Hokamp Jessica Maia a další

Zdroj: F1000Research. 14:887

vAMPirus: A versatile amplicon processing and analysis program for studying viruses

Autoři: Veglia, Alex J Rivera‐Vicéns, Ramón E Grupstra, Carsten GB a další

Zdroj: Molecular Ecology Resources. 24(6)

Témata: Biological Sciences, Ecology, Genetics, Infectious Diseases, Software, Computational Biology, DNA Viruses, Viruses, RNA Viruses, Phylogeny, amino acid, amplicon sequencing, bioinformatics, diversity, DNA, RNA, virus, Evolutionary Biology

Přístupová URL adresa: https://escholarship.org/uc/item/48d311kn