Yet another k-mer analyzer
☆160Dec 30, 2025Updated 2 months ago
Alternatives and similar repositories for yak
Users that are interested in yak are comparing it to the libraries listed below
Sorting:
- k-mer based assembly evaluation☆339Jun 28, 2024Updated last year
- haplotypic duplication identification tool☆275Oct 30, 2025Updated 4 months ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 4 years ago
- Long read / genome alignment software☆310Dec 16, 2025Updated 2 months ago
- Evaluation and polishing workflows for T2T genome assemblies☆146Jul 7, 2025Updated 7 months ago
- ☆78Jun 12, 2020Updated 5 years ago
- Evaluating genome assemblies☆115Jan 11, 2026Updated last month
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆106Jun 6, 2021Updated 4 years ago
- A genome completeness evaluation tool based on miniprot☆235Sep 18, 2025Updated 5 months ago
- Evaluate variant calls and its combination with k-mer multiplicity☆67Dec 2, 2022Updated 3 years ago
- SRF: Satellite Repeat Finder☆103Jan 8, 2024Updated 2 years ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆743Mar 18, 2025Updated 11 months ago
- Sequence-to-graph mapper and graph generator☆473Aug 11, 2025Updated 6 months ago
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆383Feb 24, 2026Updated last week
- A genomic k-mer counter (and sequence utility) with nice features.☆160Jul 4, 2025Updated 8 months ago
- GBWT-based handle graph☆31Feb 11, 2026Updated 3 weeks ago
- ☆286Dec 29, 2025Updated 2 months ago
- A program for assessing the T2T genome continuity☆92Dec 14, 2025Updated 2 months ago
- Repeat-aware polishing genomes assembled using HiFi long reads☆98Nov 12, 2025Updated 3 months ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆143Aug 24, 2025Updated 6 months ago
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆248Dec 16, 2025Updated 2 months ago
- A gap-closing software tool that uses long reads to enhance genome assembly.☆233Sep 6, 2024Updated last year
- Align proteins to genomes with splicing and frameshift☆395Jan 5, 2026Updated 2 months ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆210Jan 30, 2026Updated last month
- PECAT, a phased error correct and assembly tool☆59Dec 8, 2025Updated 2 months ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆191May 11, 2025Updated 9 months ago
- Nanopore data assembler☆167Mar 27, 2022Updated 3 years ago
- Structural Variant Identification Method using Genome Assemblies☆138Sep 16, 2022Updated 3 years ago
- Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads☆82Jan 20, 2026Updated last month
- ☆119Oct 10, 2025Updated 4 months ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆238Dec 29, 2023Updated 2 years ago
- Tool to plot synteny and structural rearrangements between genomes☆342Apr 7, 2025Updated 10 months ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆188May 17, 2024Updated last year
- Identify and find telomeres, or telomeric repeats in a genome.☆158Nov 24, 2025Updated 3 months ago
- Jasmine: SV Merging Across Samples☆241Dec 20, 2024Updated last year
- Long read based human genomic structural variation detection with cuteSV☆277Sep 30, 2025Updated 5 months ago
- recompute GFA link overlaps☆25Sep 14, 2022Updated 3 years ago
- ☆39Feb 22, 2023Updated 3 years ago