Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
☆744Mar 18, 2025Updated 11 months ago
Alternatives and similar repositories for hifiasm
Users that are interested in hifiasm are comparing it to the libraries listed below
Sorting:
- 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
- k-mer based assembly evaluation☆339Jun 28, 2024Updated last year
- Yet another Hi-C scaffolding tool☆172Nov 4, 2024Updated last year
- haplotypic duplication identification tool☆275Oct 30, 2025Updated 4 months ago
- Tools for fast and flexible genome assembly scaffolding and improvement☆559Feb 14, 2024Updated 2 years ago
- Yet another k-mer analyzer☆161Dec 30, 2025Updated 2 months ago
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆450Oct 20, 2025Updated 4 months ago
- Sequence-to-graph mapper and graph generator☆473Aug 11, 2025Updated 6 months ago
- Synteny and Rearrangement Identifier☆448Apr 29, 2025Updated 10 months ago
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆248Dec 16, 2025Updated 2 months ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆210Updated this week
- A gap-closing software tool that uses long reads to enhance genome assembly.☆233Sep 6, 2024Updated last year
- Fast and accurate de novo assembler for long reads☆398May 10, 2024Updated last year
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆254Jan 5, 2026Updated 2 months ago
- ☆286Dec 29, 2025Updated 2 months ago
- Fast and accurately polish the genome generated by long reads.☆240Jan 9, 2025Updated last year
- Long read / genome alignment software☆310Dec 16, 2025Updated 2 months ago
- An accurate GFF3/GTF lift over pipeline☆530Aug 1, 2023Updated 2 years ago
- Official home of genome aligner based upon notion of Cactus graphs☆658Feb 24, 2026Updated last week
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,133Feb 13, 2026Updated 3 weeks ago
- Extensive de-novo TE Annotator☆430Updated this week
- De novo assembler for single molecule sequencing reads using repeat graphs☆906May 2, 2025Updated 10 months ago
- Structural variation caller using third generation sequencing☆637Dec 18, 2025Updated 2 months ago
- Align proteins to genomes with splicing and frameshift☆395Jan 5, 2026Updated 2 months ago
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆167Oct 29, 2025Updated 4 months ago
- Constructing a pangenome gene graph☆204Aug 11, 2025Updated 6 months ago
- Tool to plot synteny and structural rearrangements between genomes☆343Apr 7, 2025Updated 11 months ago
- A single molecule sequence assembler for genomes large and small.☆695Feb 24, 2026Updated last week
- ☆119Oct 10, 2025Updated 4 months ago
- Read-based phasing of genomic variants, also called haplotype assembly☆406Dec 31, 2025Updated 2 months ago
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆292Feb 25, 2026Updated last week
- A genome completeness evaluation tool based on miniprot☆235Sep 18, 2025Updated 5 months ago
- the pangenome graph builder☆481Dec 8, 2025Updated 3 months ago
- Python library to facilitate genome assembly, annotation, and comparative genomics☆890Mar 2, 2026Updated last week
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆238Dec 29, 2023Updated 2 years ago
- ☆78Jun 12, 2020Updated 5 years ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆191May 11, 2025Updated 9 months ago
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆531Sep 27, 2023Updated 2 years ago
- 3D de novo assembly (3D DNA) pipeline☆223Nov 29, 2023Updated 2 years ago