VGP repository for the genome assembly working group
☆193Mar 31, 2026Updated 3 months ago
Alternatives and similar repositories for vgp-assembly
Users that are interested in vgp-assembly are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- k-mer based assembly evaluation☆344May 21, 2026Updated last month
- The Vertebrate Genomes Project Mitogenome Assembly Pipeline☆19Mar 26, 2023Updated 3 years ago
- Evaluate variant calls and its combination with k-mer multiplicity☆69Dec 2, 2022Updated 3 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆189May 17, 2024Updated 2 years ago
- Tools for fast and flexible genome assembly scaffolding and improvement☆567Feb 14, 2024Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- A single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulatio…☆125Jun 18, 2026Updated last week
- haplotypic duplication identification tool☆289Oct 30, 2025Updated 8 months ago
- Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).☆111Jul 23, 2024Updated last year
- Find, circularise and annotate mitogenome from PacBio assemblies☆197May 11, 2025Updated last year
- Scaffolding with Ultralong Reads☆15Nov 11, 2020Updated 5 years ago
- Simple tools for working with Hi-C data☆20Dec 19, 2018Updated 7 years ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆179Oct 20, 2024Updated last year
- Fast and accurately polish the genome generated by long reads.☆244Jan 9, 2025Updated last year
- Evaluation and polishing workflows for T2T genome assemblies☆156Jun 16, 2026Updated 2 weeks ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆464Jun 17, 2026Updated 2 weeks ago
- assembly evaluation tool☆35May 11, 2022Updated 4 years ago
- Yet another Hi-C scaffolding tool☆181Nov 4, 2024Updated last year
- FALCON-Phase integrates PacBio long-read assemblies with Phase Genomics Hi-C data to create phased, diploid, chromosome-scale scaffolds☆72Nov 12, 2020Updated 5 years ago
- Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/☆576May 18, 2026Updated last month
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆173May 30, 2021Updated 5 years ago
- scripts for the project of seven thaliana genomes assembly☆42May 22, 2021Updated 5 years ago
- Yet another k-mer analyzer☆173Dec 30, 2025Updated 6 months ago
- Generate an interactive dot plot from mummer or minimap alignments☆219Jan 17, 2024Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- 3D de novo assembly (3D DNA) pipeline☆225Nov 29, 2023Updated 2 years ago
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆252Dec 16, 2025Updated 6 months ago
- software tools for haplotype assembly from sequence data☆232Feb 9, 2025Updated last year
- Fast genome analysis from unassembled short reads☆323Apr 8, 2024Updated 2 years ago
- GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the sc…☆149Apr 13, 2026Updated 2 months ago
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆401Apr 22, 2026Updated 2 months ago
- Close assembly gaps using long-reads at high accuracy.☆52Feb 20, 2024Updated 2 years ago
- An accurate GFF3/GTF lift over pipeline☆546Aug 1, 2023Updated 2 years ago
- the pangenome graph builder☆506Mar 31, 2026Updated 3 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A genomic k-mer counter (and sequence utility) with nice features.☆169Jun 3, 2026Updated 3 weeks ago
- ☆42Oct 6, 2025Updated 8 months ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆113Jun 6, 2021Updated 5 years ago
- A program for assessing the T2T genome continuity and completeness☆95Feb 28, 2026Updated 4 months ago
- Reduction of Althaps and Duplicate Contigs for Improved Downstream Analysis☆20Updated this week
- ☆78Jun 12, 2020Updated 6 years ago
- A gap-closing software tool that uses long reads to enhance genome assembly.☆241Sep 6, 2024Updated last year