ArticleBioinformatics (Oxford, England)2010
Ergatis: a web interface and scalable software system for bioinformatics workflows.
Article in Bioinformatics (Oxford, England), 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers.
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Who cites it
62 citing papers in PubMed.
- NERVE 2.0: boosting the new enhanced reverse vaccinology environment via artificial intelligence and a user-friendly web interface.BMC bioinformatics · 2024Article
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- Genomic diversity of non-diarrheagenic fecal Escherichia coli from children in sub-Saharan Africa and south Asia and their relatedness to diarrheagenic E. coli.Nature communications · 2023Article
- Potential Use of Microbial Community Genomes in Various Dimensions of Agriculture Productivity and Its Management: A Review.Frontiers in microbiology · 2022Review
- Contribution of Noncanonical Antigens to Virulence and Adaptive Immunity in Human Infection with Enterotoxigenic E. coli.Infection and immunity · 2021Article
- Complete Genome Sequence of Francisella halioticida Type Strain DSM 23729 (FSC1005).Microbiology resource announcements · 2020Article
- Comparative genomic analysis provides insight into the phylogeny and virulence of atypical enteropathogenic Escherichia coli strains from Brazil.PLoS neglected tropical diseases · 2020Article
- ReVac: a reverse vaccinology computational pipeline for prioritization of prokaryotic protein vaccine candidates.BMC genomics · 2019Article
- Comparative genomic analysis and molecular examination of the diversity of enterotoxigenic Escherichia coli isolates from Chile.PLoS neglected tropical diseases · 2019Article
- Draft Genome Sequences of Two Staphylococcus warneri Clinical Isolates, Strains SMA0023-04 (UGA3) and SMA0670-05 (UGA28), from Siaya County Referral Hospital, Siaya, Kenya.Microbiology resource announcements · 2019Article
- Temporal Variability ofmSphere · 2018Article
- A comparative analysis of library prep approaches for sequencing low input translatome samples.BMC genomics · 2018Article
- Salmonella Typhi Colonization Provokes Extensive Transcriptional Changes Aimed at Evading Host Mucosal Immune Defense During Early Infection of Human Intestinal Tissue.EBioMedicine · 2018Article
- Role of Ethanolamine Utilization Genes in Host Colonization during Urinary Tract Infection.Infection and immunity · 2018Article
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- Comparative genomics and transcriptomics of Escherichia coli isolates carrying virulence factors of both enteropathogenic and enterotoxigenic E. coli.Scientific reports · 2017Article
- CloVR-Comparative: automated, cloud-enabled comparative microbial genome sequence analysis pipeline.BMC genomics · 2017Article
- ATGC transcriptomics: a web-based application to integrate, explore and analyze de novo transcriptomic data.BMC bioinformatics · 2017Article
- Article
2 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
15 authors.
Funding
Abstract
motivationThe growth of sequence data has been accompanied by an increasing need to analyze data on distributed computer clusters. The use of these systems for routine analysis requires scalable and robust software for data management of large datasets. Software is also needed to simplify data management and make large-scale bioinformatics analysis accessible and reproducible to a wide class of target users.
resultsWe have developed a workflow management system named Ergatis that enables users to build, execute and monitor pipelines for computational analysis of genomics data. Ergatis contains preconfigured components and template pipelines for a number of common bioinformatics tasks such as prokaryotic genome annotation and genome comparisons. Outputs from many of these components can be loaded into a Chado relational database. Ergatis was designed to be accessible to a broad class of users and provides a user friendly, web-based interface. Ergatis supports high-throughput batch processing on distributed compute clusters and has been used for data management in a number of genome annotation and comparative genomics projects. AVAILABILITY: Ergatis is an open-source project and is freely available at http://ergatis.sourceforge.net.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.