Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
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Summary
Pilon is a fully automated, all-in-one tool for correcting draft assemblies and calling sequence variants of multiple sizes, including very large insertions and deletions, which is being used to improve the assemblies of thousands of new genomes and to identify variants from thousands of clinically relevant bacterial strains.
- Type
- article
- Published
- 2014-11-19
- Cited by
- 8,208
- References
- 49
- Access
- Open access
- OpenAlex
- https://openalex.org/W1982855075
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:7422811
Keywords
Genome, Computational biology, Sequence assembly, Biology, Identification (biology)
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- Genome-wide prediction of transcription factor binding sites using an integrated model
- Fast algorithms for large-scale genome alignment and comparison.
- Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology
- Solution structure of choline binding protein A, the major adhesin of Streptococcus pneumoniae
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- Complete Genome Sequence of Staphylococcus haemolyticus Type Strain SGAir0252
- Complete Genome Sequence of Acinetobacter schindleri SGAir0122 Isolated from Singapore Air
- Closed Genome and Comparative Phylogenetic Analysis of the Clinical Multidrug Resistant Shigella sonnei Strain 866
- Global analysis of mutations driving microevolution of a heterozygous diploid fungal pathogen
- A simple strategy for recovering ultraconserved elements, exons, and introns from low coverage shotgun sequencing of museum specimens: Placement of the partridge genus Tropicoperdix within the galliformes.
- Lactobacillus paragasseri sp. nov., a sister taxon of Lactobacillus gasseri, based on whole-genome sequence analyses.
- Genetic repertoires of anaerobic microbiomes driving generation of biogas
- Genome analysis of Mycobacterium avium subspecies hominissuis strain 109
- Chromosomal level reference genome of Tachypleus tridentatus provides insights into evolution and adaptation of horseshoe crabs
- Chromosome rearrangements shape the diversification of secondary metabolism in the cyclosporin producing fungus Tolypocladium inflatum
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- The complete mitochondrial genomes of two sibling species of camellia weevils (Coleoptera: Curculionidae) and patterns of Curculionini speciation
- Complete Genome Sequence of Halorubrum ezzemoulense Strain Fb21
- A high-quality apple genome assembly reveals the association of a retrotransposon and red fruit colour
- Ancestral Admixture Is the Main Determinant of Global Biodiversity in Fission Yeast
- Mikania micrantha genome provides insights into the molecular mechanism of rapid growth
- Chromosome-scale assembly and evolution of the tetraploid Salvia splendens (Lamiaceae) genome
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