colindaven / awesome-pangenomesView external linksLinks
A list of software for pangenomics
☆174Jan 28, 2026Updated 2 weeks ago
Alternatives and similar repositories for awesome-pangenomes
Users that are interested in awesome-pangenomes are comparing it to the libraries listed below
Sorting:
- PG-SCUnK mesure quality of Pan-Genome Graphs using Single Copy and Universal k-mers☆23Feb 2, 2026Updated 2 weeks ago
- an interactive visualization and interpretation framework of reference-projected pangenome graphs☆37Feb 15, 2025Updated last year
- Constructing a pangenome gene graph☆204Aug 11, 2025Updated 6 months ago
- Pangenome-based genome inference☆155Dec 1, 2025Updated 2 months ago
- the pangenome graph builder☆478Dec 8, 2025Updated 2 months ago
- Identification of transposable element families from pangenome polymorphisms☆55Jun 3, 2025Updated 8 months ago
- Panacus is a tool for computing statistics for GFA-formatted pangenome graphs☆119Feb 3, 2026Updated 2 weeks ago
- Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions☆36May 14, 2025Updated 9 months ago
- Mumemto: multi-MUM and MEM finding across pangenomes☆128Dec 8, 2025Updated 2 months ago
- implicit pangenome graph☆88Feb 9, 2026Updated last 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
- COsine SImilarity-based Genotyper using pangenomes☆25Jan 23, 2026Updated 3 weeks ago
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆248Dec 16, 2025Updated 2 months ago
- MEMO: MEM-based pangenome indexing for k-mer queries☆20Jun 11, 2024Updated last year
- Long read aligner for cyclic and acyclic pangenome graphs☆40Dec 20, 2023Updated 2 years ago
- Whole Genome Alignment Tools☆213Nov 6, 2025Updated 3 months ago
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated last year
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆35Oct 27, 2025Updated 3 months ago
- base-level dotplots from PAF alignments☆31Sep 18, 2025Updated 4 months ago
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆44Oct 13, 2024Updated last year
- Kmer Analysis of Pileups for Genotyping☆35Jan 30, 2026Updated 2 weeks ago
- Draw a dot plot from a paf alignment☆38Sep 18, 2025Updated 4 months ago
- Statistics and analysis for variation graphs☆49Dec 17, 2024Updated last year
- ☆101Apr 22, 2024Updated last year
- Phased structural variant discovery in pangenomes☆39Dec 9, 2025Updated 2 months ago
- A plant organellar Graphical Fragment Assembly toolkit☆16Sep 10, 2025Updated 5 months ago
- Jasmine: SV Merging Across Samples☆240Dec 20, 2024Updated last year
- Find, circularise and annotate mitogenome from PacBio assemblies☆191May 11, 2025Updated 9 months ago
- An ultra-fast and efficient genomic tool for coverage calculation☆169Feb 9, 2026Updated last week
- Evaluation and polishing workflows for T2T genome assemblies☆146Jul 7, 2025Updated 7 months ago
- Show pangenome graphs in an easy way☆58Aug 7, 2025Updated 6 months ago
- convert alignment bam to pairwise alignment or multiple sequence alignment (msa) at genome specific region☆13May 21, 2024Updated last year
- ANI based satellite annotation☆23Nov 7, 2025Updated 3 months ago
- Telomere local assembly, Improved whole genome polish, and Plastid assembly☆22Apr 25, 2025Updated 9 months ago
- Official home of genome aligner based upon notion of Cactus graphs☆652Updated this week
- Synteny and Rearrangement Identifier☆447Apr 29, 2025Updated 9 months ago
- Repeat-aware polishing genomes assembled using HiFi long reads☆98Nov 12, 2025Updated 3 months ago
- This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…☆34Oct 29, 2025Updated 3 months ago
- Wavefront alignment algorithm (WFA) in Golang☆32Jul 26, 2025Updated 6 months ago