A Nextflow pipeline for evaluating assembly quality
☆40Nov 9, 2025Updated 6 months ago
Alternatives and similar repositories for assemblyqc
Users that are interested in assemblyqc are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A Nextflow pipeline for genome and pan-genome annotation☆16Feb 22, 2026Updated 2 months ago
- Deleterious mutation prediction pipeline☆13Dec 16, 2024Updated last year
- A genome assembly assessment pipeline.☆38Nov 20, 2023Updated 2 years ago
- YAGCloser: Yet-Another-Gap-Closer based on spanning of long reads.☆13Nov 6, 2025Updated 6 months ago
- Nextflow DSL2 pipeline to align short and long reads to genome assembly. This workflow is part of the Tree of Life production suite.☆16Updated this week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 4 years ago
- Tools for working with agp files☆19Jun 26, 2025Updated 10 months ago
- A program to generate a graph which presents a simplified representation of several full length genomes☆13Aug 23, 2018Updated 7 years ago
- GeneMiner: a tool for extracting phylogenetic markers from next-generation sequencing data☆12Feb 22, 2024Updated 2 years ago
- The MafFilter genome alignment processor☆19Apr 10, 2026Updated last month
- Any Way to Show Multi genomic Synteny☆227Jul 4, 2025Updated 10 months ago
- ☆86Jul 12, 2024Updated last year
- An R package to perform systematic quality checks on comparative genomics analyses☆12Mar 5, 2026Updated 2 months ago
- Pipeline to phase a genome into two homeologous subgenomes. Parental genomes are required.☆10May 22, 2025Updated 11 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Implementation of ToL genome assembly workflows☆29Apr 30, 2026Updated last week
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on 3C-based data (Pore-C, CiFi, Hi-C,Omni-C).☆93Jan 25, 2026Updated 3 months ago
- ☆19Nov 19, 2025Updated 5 months 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 2 years ago
- A genome completeness evaluation tool based on miniprot☆240Sep 18, 2025Updated 7 months ago
- DNN-based small variant caller☆12May 2, 2022Updated 4 years ago
- ☆248May 1, 2026Updated last week
- a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees☆30Feb 23, 2026Updated 2 months ago
- Iterative error correction of long reads☆13Dec 9, 2022Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- A tool for performing collinearity-incorporating homology inference☆33Oct 7, 2023Updated 2 years ago
- Improved long-read assembly by preserving contained reads☆30Aug 22, 2024Updated last year
- ☆15Apr 2, 2024Updated 2 years ago
- Chromosome-level synteny plotting using orthologous regions☆32Sep 19, 2024Updated last year
- OMAmer - tree-driven and alignment-free protein assignment to sub-families☆22Apr 29, 2026Updated last week
- Identify and find telomeres, or telomeric repeats in a genome.☆163Nov 24, 2025Updated 5 months ago
- process any file in tabular format. Fasta/fastq/GTF/GFF/VCF/SAM/BED☆23Aug 22, 2025Updated 8 months ago
- Basecalling configuration prediction through FASTQ files☆33Mar 17, 2026Updated last month
- A stand-alone application for constructing websites for visualizing and browsing synteny blocks☆18Jan 11, 2021Updated 5 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Assembly and scaffolding of haploid / unphased genomes from long ONT or PacBio HiFi reads☆33Apr 30, 2026Updated last week
- MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!☆285Oct 4, 2025Updated 7 months ago
- Robust identification of orthologous Synteny with the Orthology Index☆42Updated this week
- Functional annotation pipeline for proteins from non-model organisms implemented in Nextflow☆19Feb 28, 2022Updated 4 years ago
- ☆16Apr 3, 2023Updated 3 years ago
- Tools for fast and flexible genome assembly scaffolding and improvement☆564Feb 14, 2024Updated 2 years ago
- BITACORA: A Bioinformatics tool for gene family annotation☆54Dec 10, 2025Updated 5 months ago