A genome assembly assessment pipeline.
☆38Nov 20, 2023Updated 2 years ago
Alternatives and similar repositories for GAEP
Users that are interested in GAEP are comparing it to the libraries listed below
Sorting:
- ☆29Jul 16, 2022Updated 3 years ago
- ☆15Jan 19, 2022Updated 4 years ago
- Some components that speed up and reduce resource cost for original ALLHiC☆14Jun 21, 2025Updated 9 months ago
- Gapless provides combined scaffolding, gap-closing and assembly correction with long reads☆38Mar 5, 2023Updated 3 years ago
- RegCloser is a genome gap-closing tool based on the robust regression approach, which is conceptually applicable to de novo assembly of N…☆15Apr 22, 2024Updated last year
- CATG (Collinearity-based Assembly correcTor GUI) is a tool that can correct genome assembly with collinearity and generate tour files for…☆17Jan 24, 2026Updated last month
- HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C☆26Jan 14, 2021Updated 5 years ago
- ☆16Apr 3, 2023Updated 2 years ago
- ☆26Mar 23, 2024Updated last year
- SINE annotation tool for plant genomes☆19Jan 21, 2024Updated 2 years ago
- A software for gap filling in genome assemblies☆10Aug 12, 2022Updated 3 years ago
- Quartet-based species tree and tree of blob estimation☆15Feb 10, 2026Updated last month
- BITACORA: A Bioinformatics tool for gene family annotation☆53Dec 10, 2025Updated 3 months ago
- ☆42May 19, 2025Updated 10 months ago
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated 10 months ago
- YAGCloser: Yet-Another-Gap-Closer based on spanning of long reads.☆12Nov 6, 2025Updated 4 months ago
- An ultra-fast gzip file tools☆27Apr 25, 2024Updated last year
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated last year
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆70Mar 23, 2025Updated 11 months ago
- ☆31Apr 7, 2025Updated 11 months ago
- Software GMATA for SSR mining, marker designing, genotyping, plot etc.☆17Oct 6, 2025Updated 5 months ago
- “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau☆19Jul 13, 2020Updated 5 years ago
- SRY: an effective method for sorting long-read of sex-limited (Y or W) chromosome.☆19Aug 1, 2023Updated 2 years ago
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆15Sep 17, 2025Updated 6 months ago
- ☆30Mar 4, 2022Updated 4 years ago
- A shiny application to visualize MCscan result☆37Mar 8, 2026Updated last week
- Ploidy agnostic phasing pipeline and algorithm☆49Jan 3, 2024Updated 2 years ago
- k-mer based assembly evaluation☆340Jun 28, 2024Updated last year
- Study of TE evolution in a population of genomes☆10Dec 11, 2023Updated 2 years ago
- haplotypic duplication identification tool☆276Oct 30, 2025Updated 4 months ago
- ☆33Mar 19, 2025Updated last year
- Centromics: visualing centromeres with multiple omics data☆21Jan 18, 2024Updated 2 years ago
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆21Dec 5, 2023Updated 2 years ago
- A pipeline used to identify different modes of duplicated gene pairs☆119Jul 22, 2025Updated 7 months ago
- plot genome alignment synteny☆20May 25, 2020Updated 5 years ago
- A tool for evaluating long-read de novo assembly results☆52Aug 25, 2024Updated last year
- a fork of the gap-closing pipeline PBJelly☆15Jan 7, 2019Updated 7 years ago
- R package to draw syntenic plots in 3 different styles☆45Feb 2, 2026Updated last month
- Reconstruction of ancestral genome maps☆16Mar 29, 2018Updated 7 years ago