ArticleGenome biology and evolution2023
IRplus: An Augmented Tool to Detect Inverted Repeats in Plastid Genomes.
Article in Genome biology and evolution, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17 citing papers in PubMed.
- Comparative Chloroplast Genome Analysis of Anchusa and the Adulterants of HERBA ANCHUSAE.Genes · 2026Article
- Characterisation of the chloroplast genome of Macrotyloma species: comparative analysis and phylogenomic insights.Scientific reports · 2026Article
- Phylogenomic discordance among plastid genes in endangered Maltese Limonium.Scientific reports · 2026Article
- Chloroplast and Mitochondrial Genomes of the Lichen-Symbiotic Green Alga Trebouxia Illuminate Evolutionary Relationships and Climate Associations and Yield New Phylogenetic Markers.Genome biology and evolution · 2026Article
- The Complete Chloroplast Genome of a Vietnam Endemic Aroid,Ecology and evolution · 2026Article
- Plastid genome evolution and phylogenomics with broad taxon sampling: insights into intrafamilial classification of Hamamelidaceae.Frontiers in plant science · 2026Article
- Comparative chloroplast genomics clarifies the taxonomic status and supports molecular identification ofFrontiers in plant science · 2026Article
- Complete chloroplast genome ofFrontiers in plant science · 2026Article
- Episodic and Ongoing Mechanisms Drive Plastid-Derived Nuclear DNA Evolution in Angiosperms.Genome biology and evolution · 2025Article
- PlastidHub: An integrated analysis platform for plastid phylogenomics and comparative genomics.Plant diversity · 2025Article
- Comparative plastome analyses and phylogenetic insights of Elatostema.BMC plant biology · 2025Article
- Substantial structural variation and repetitive DNA content contribute to intraspecific plastid genome evolution.BMC genomics · 2025Article
- Chloroplast genome sequencing and phylogenetic analysis ofMitochondrial DNA. Part B, Resources · 2025Article
- Article
- Complete Chloroplast Genome ofGenes · 2024Article
- Article
- The first complete chloroplast genome ofFrontiers in plant science · 2024Article
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Authors and funding
5 authors.
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Abstract
High-throughput sequencing methods have increased the accessibility of plastid genomes, which are crucial for clarifying phylogenetic relationships. Current large sequencing efforts require software tools for routine display of their distinctive quadripartite structure, which is denoted by four junction sites. By concentrating on these junctions and their close vicinity, IRscope has emerged as the standard tool for detection of this structure and creating simplified comparative graphical maps of plastid genomes. Here, we provide an augmented version (IRplus) that encompasses a novel set of functions such as integrated error detection, flexible color schemes, and an upgraded method to detect inverted repeats in genomic sequences. Spanning across the plant tree of life, IRplus allows the quick visualization of various sets of plastid genomes and features, next to smooth interoperability with other widely used annotation file formats and platforms. The IRplus can be accessed at https://irscope.shinyapps.io/IRplus/, and source codes are freely available at https://github.com/AmiryousefiLab/IRplus.
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