A list of software for pangenomics
☆200Sep 16, 2026Updated last week
Alternatives and similar repositories for awesome-pangenomes
Users that are interested in awesome-pangenomes are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- PG-SCUnK mesure quality of Pan-Genome Graphs using Single Copy and Universal k-mers☆25Feb 16, 2026Updated 7 months ago
- Panacus is a tool for computing statistics for GFA-formatted pangenome graphs☆139Sep 8, 2026Updated 2 weeks ago
- Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions☆38Apr 28, 2026Updated 4 months ago
- the pangenome graph builder☆517Jul 24, 2026Updated 2 months ago
- an interactive visualization and interpretation framework of reference-projected pangenome graphs☆42Feb 15, 2025Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Pangenome-based genome inference☆181Sep 15, 2026Updated last week
- Identification of transposable element families from pangenome polymorphisms☆57Aug 11, 2026Updated last month
- Constructing a pangenome gene graph☆212Aug 11, 2025Updated last year
- Mumemto: multi-MUM and MEM finding across pangenomes☆137Updated this week
- COsine SImilarity-based Genotyper using pangenomes☆40Updated this week
- LongcallD: joint calling and phasing of small, structural and mosaic variants from long reads☆111Jun 25, 2026Updated 3 months ago
- Show pangenome graphs in an easy way☆61Aug 7, 2025Updated last year
- ☆30Aug 7, 2025Updated last year
- GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered …☆273Updated this week
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Pairwise whole genome aligner☆244Sep 4, 2026Updated 3 weeks ago
- implicit pangenome graph☆114Updated this week
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- Compares pangenome graphs by calculating the segmentation distance between two GFA (Graphical Fragment Assembly) files.☆15Apr 28, 2026Updated 4 months ago
- Synteny and Rearrangement Identifier☆491Jul 1, 2026Updated 2 months ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆224Updated this week
- This is the standalone version of the EviAnn pipeline☆186Sep 10, 2026Updated 2 weeks ago
- Statistics and analysis for variation graphs☆55Dec 17, 2024Updated last year
- Long-reads Gap-free Chromosome-scale Assembler☆79Mar 21, 2023Updated 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.
- Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs☆250Sep 16, 2026Updated last week
- ☆52Jun 27, 2026Updated 3 months ago
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆47Oct 13, 2024Updated last year
- plane sweep filtering genome alignments☆24Updated this week
- HELIANO is a software for detection and classification of Helitron-like elements.☆34Jul 13, 2026Updated 2 months ago
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆253Dec 16, 2025Updated 9 months ago
- This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…☆40Oct 29, 2025Updated 10 months ago
- Genome Assembly 102☆18Apr 23, 2025Updated last year
- ☆166Apr 13, 2026Updated 5 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- High-precision TE Annotator☆165Dec 4, 2025Updated 9 months ago
- An accurate GFF3/GTF lift over pipeline☆558Aug 1, 2023Updated 3 years ago
- Official home of genome aligner based upon notion of Cactus graphs☆708Updated this week
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆419Aug 25, 2026Updated last month
- Evaluation and polishing workflows for T2T genome assemblies☆170Sep 15, 2026Updated last week
- Long read aligner for cyclic and acyclic pangenome graphs☆41Dec 20, 2023Updated 2 years ago
- ☆24May 31, 2024Updated 2 years ago