ArticleiMeta2024
JCVI: A versatile toolkit for comparative genomics analysis.
Article in iMeta, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 302 papers.
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Who cites it
302 citing papers in PubMed.
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- Tandem duplication underlies diversification of the gymnosperm-specific TPS-d subfamily.Horticulture research · 2026Article
- An integrated molecular cytogenetic platform enables precise characterization of Thinopyrum ponticum chromatin and its structural modifications in wheat background.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Telomere-to-Telomere Genome Assemblies ofJournal of fungi (Basel, Switzerland) · 2026Article
- Sarcandra glabra genome unveils functional conservation and divergence of O-methyltransferases catalyzing isofraxidin biosynthesis in angiosperms.Nature communications · 2026Article
- Genome-Wide Identification of SNF7 Gene Family in Maize and Potential Roles in Response to Abiotic and Biotic Stress.International journal of molecular sciences · 2026Article
- Article
- Genomic and evolutionary basis of parthenogenesis in a disease-vector tick species.Nature ecology & evolution · 2026Article
- Haplotype-resolved regulation of secondary metabolism in cannabis.Horticulture research · 2026Article
- Pangenome ofEcology and evolution · 2026Article
- A high-quality haplotype-resolved genome of Pyrus calleryana provides insights into adaptive gene families.The plant genome · 2026Article
- Nissolia brasiliensis as a nonnodulating model legume.Plant physiology · 2026Article
- Haplotype-resolved genome assembly of femaleHorticulture research · 2026Article
- Haplotype-resolved autotetraploid genome of Dioscorea nipponica provides insights into recent polyploidization, metabolic rewiring, and environmental adaptation.The Plant journal : for cell and molecular biology · 2026Article
- Allelic expression and subgenome bias influence plant height in cultivated hybrid sugarcane.aBIOTECH · 2026Article
- A recently evolved Nodulin recruited by NIN for root hair rhizobial infection in Medicago truncatula.The New phytologist · 2026Article
- Chromosome-level Streptochaeta genome elucidates the ancestral karyotype and allopolyploid origin of grasses.Nature communications · 2026Article
- Complete telomere-to-telomere genome assembly of Guazuma ulmifolia uncovers evolutionary mechanisms, drought adaptation, and flavonoid biosynthesis.Plant cell reports · 2026Article
- Genome-wide characterization of BraABCB transporters reveals their potential roles in hormone responses in Brassica rapa var. parachinensis.Plant cell reports · 2026Article
242 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
12 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The life cycle of genome builds spans interlocking pillars of assembly, annotation, and comparative genomics to drive biological insights. While tools exist to address each pillar separately, there is a growing need for tools to integrate different pillars of a genome project holistically. For example, comparative approaches can provide quality control of assembly or annotation; genome assembly, in turn, can help to identify artifacts that may complicate the interpretation of genome comparisons. The JCVI library is a versatile Python-based library that offers a suite of tools that excel across these pillars. Featuring a modular design, the JCVI library provides high-level utilities for tasks such as format parsing, graphics generation, and manipulation of genome assemblies and annotations. Supporting genomics algorithms like MCscan and ALLMAPS are widely employed in building genome releases, producing publication-ready figures for quality assessment and evolutionary inference. Developed and maintained collaboratively, the JCVI library emphasizes quality and reusability.
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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.