NOVOPlasty - The organelle assembler and heteroplasmy caller
☆197Feb 4, 2024Updated 2 years ago
Alternatives and similar repositories for NOVOPlasty
Users that are interested in NOVOPlasty are comparing it to the libraries listed below
Sorting:
- Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)☆371Feb 13, 2025Updated last year
- MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes☆135Nov 6, 2024Updated last year
- Automated de novo assembly of whole chloroplast genomes.☆48Sep 23, 2024Updated last year
- MITObim - mitochondrial baiting and iterative mapping☆115Dec 29, 2020Updated 5 years ago
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆215Updated this week
- MitoDNA extending assembler from NGS data☆22Aug 21, 2025Updated 6 months ago
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆292Feb 25, 2026Updated last week
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆178Oct 20, 2024Updated last year
- Fast and accurately polish the genome generated by long reads.☆240Jan 9, 2025Updated last year
- Hybridization detection using phylogenetic invariants☆52Oct 29, 2024Updated last year
- Extensive de-novo TE Annotator☆430Updated this week
- Find, circularise and annotate mitogenome from PacBio assemblies☆191May 11, 2025Updated 9 months ago
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆449Oct 20, 2025Updated 4 months ago
- haplotypic duplication identification tool☆275Oct 30, 2025Updated 4 months ago
- Fast and accurate de novo assembler for long reads☆398May 10, 2024Updated last year
- Fast genome analysis from unassembled short reads☆313Apr 8, 2024Updated last year
- Synteny and Rearrangement Identifier☆448Apr 29, 2025Updated 10 months ago
- Accurate Species TRee ALgorithm☆273Apr 1, 2024Updated last year
- Tools for fast and flexible genome assembly scaffolding and improvement☆559Feb 14, 2024Updated 2 years ago
- Genome annotation with AUGUSTUS☆328Aug 15, 2025Updated 6 months ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆188May 17, 2024Updated last year
- A gap-closing software tool that uses long reads to enhance genome assembly.☆233Sep 6, 2024Updated last year
- MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data☆113Sep 2, 2025Updated 6 months ago
- Fast and frugal disk based k-mer counter☆14Apr 1, 2021Updated 4 years ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆106Nov 17, 2025Updated 3 months ago
- Software GMATA for SSR mining, marker designing, genotyping, plot etc.☆17Oct 6, 2025Updated 5 months ago
- Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.☆119Apr 7, 2021Updated 4 years ago
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆185Dec 19, 2024Updated last year
- An accurate and ultra-fast hybrid genome assembler☆87Apr 10, 2024Updated last year
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆207Nov 18, 2022Updated 3 years ago
- Version 5 of the CAFE phylogenetics software☆161Feb 12, 2025Updated last year
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆174May 30, 2021Updated 4 years ago
- k-mer based assembly evaluation☆339Jun 28, 2024Updated last year
- TGS scaffolding☆47Nov 19, 2021Updated 4 years ago
- scripts to parse and analyse MCScanX collinearity output☆32Mar 3, 2020Updated 6 years ago
- ☆270Jun 26, 2025Updated 8 months ago
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆744Mar 18, 2025Updated 11 months ago
- Phylogenetic orthology inference for comparative genomics☆839Jul 15, 2025Updated 7 months ago
- Eukaryotic Genome Annotation Pipeline☆382Feb 12, 2026Updated 3 weeks ago