dfguan / purge_dupsView external linksLinks
haplotypic duplication identification tool
☆275Oct 30, 2025Updated 3 months ago
Alternatives and similar repositories for purge_dups
Users that are interested in purge_dups are comparing it to the libraries listed below
Sorting:
- k-mer based assembly evaluation☆338Jun 28, 2024Updated last year
- A gap-closing software tool that uses long reads to enhance genome assembly.☆231Sep 6, 2024Updated last year
- Evaluation and polishing workflows for T2T genome assemblies☆146Jul 7, 2025Updated 7 months ago
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆164Oct 29, 2025Updated 3 months ago
- Yet another k-mer analyzer☆158Dec 30, 2025Updated last month
- Synteny and Rearrangement Identifier☆447Apr 29, 2025Updated 9 months ago
- A genomic k-mer counter (and sequence utility) with nice features.☆159Jul 4, 2025Updated 7 months ago
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆381Feb 6, 2026Updated last week
- Tools for fast and flexible genome assembly scaffolding and improvement☆554Feb 14, 2024Updated 2 years ago
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆291Jan 30, 2026Updated 2 weeks ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆188May 17, 2024Updated last year
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆215Jun 25, 2025Updated 7 months ago
- software tools for haplotype assembly from sequence data☆226Feb 9, 2025Updated last year
- Fast and accurate de novo assembler for long reads☆398May 10, 2024Updated last year
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆736Mar 18, 2025Updated 10 months ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆191May 11, 2025Updated 9 months ago
- Fast genome analysis from unassembled short reads☆309Apr 8, 2024Updated last year
- Fast and accurately polish the genome generated by long reads.☆240Jan 9, 2025Updated last year
- Yet another Hi-C scaffolding tool☆170Nov 4, 2024Updated last year
- Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.☆169Apr 14, 2025Updated 10 months ago
- Evaluating genome assemblies☆114Jan 11, 2026Updated last month
- Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).☆102Jul 23, 2024Updated last year
- A program for assessing the T2T genome continuity☆92Dec 14, 2025Updated 2 months ago
- High-precision TE Annotator☆150Dec 4, 2025Updated 2 months ago
- Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)☆369Feb 13, 2025Updated last year
- PECAT, a phased error correct and assembly tool☆59Dec 8, 2025Updated 2 months ago
- A genome completeness evaluation tool based on miniprot☆233Sep 18, 2025Updated 4 months ago
- Extensive de-novo TE Annotator☆429Oct 12, 2025Updated 4 months ago
- Repeat-aware polishing genomes assembled using HiFi long reads☆98Nov 12, 2025Updated 3 months ago
- 3D de novo assembly (3D DNA) pipeline☆221Nov 29, 2023Updated 2 years ago
- Evaluate variant calls and its combination with k-mer multiplicity☆67Dec 2, 2022Updated 3 years ago
- Generate an interactive dot plot from mummer or minimap alignments☆211Jan 17, 2024Updated 2 years ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆177Oct 20, 2024Updated last year
- Reference-free profiling of polyploid genomes☆141Oct 2, 2025Updated 4 months ago
- A Hi-C scaffolding method☆22Dec 22, 2021Updated 4 years ago
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆207Nov 18, 2022Updated 3 years ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆235Dec 29, 2023Updated 2 years ago
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆254Jan 5, 2026Updated last month
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆445Oct 20, 2025Updated 3 months ago