baozg / phased-assembly-checkView external linksLinks
☆32Jan 3, 2025Updated last year
Alternatives and similar repositories for phased-assembly-check
Users that are interested in phased-assembly-check are comparing it to the libraries listed below
Sorting:
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated 9 months ago
- base-level dotplots from PAF alignments☆31Sep 18, 2025Updated 4 months ago
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆21Dec 5, 2023Updated 2 years ago
- ☆31Apr 7, 2025Updated 10 months ago
- ☆18Jan 29, 2025Updated last year
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 4 years ago
- Nucmer from Mummer3 followed by ggplot for nicer and more customisable genome alignment plots.☆11Feb 25, 2021Updated 4 years ago
- Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning☆28Aug 14, 2024Updated last year
- SINE annotation tool for plant genomes☆18Jan 21, 2024Updated 2 years ago
- Everything but the kitchen sink☆12Feb 6, 2025Updated last year
- 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
- SV calling for diploid assemblies☆31Mar 22, 2024Updated last year
- pangenome analyses for complete genomes of great apes (and gibbon)☆20Oct 12, 2024Updated last year
- ☆38Dec 29, 2025Updated last month
- ☆12Jun 7, 2024Updated last year
- bash script to search for centromeric repeat patterns in PacBio data, using several current tools (trf and R)☆13Dec 1, 2016Updated 9 years ago
- Plant genome assembly and annotation pipeline using snakemake☆52May 14, 2025Updated 9 months ago
- De novo chromosome-level scaffolding and phasing tool using Hi-C☆29Nov 23, 2025Updated 2 months ago
- ☆29Jul 16, 2022Updated 3 years ago
- Detecting genome structural variants with deep learning in single molecule sequencing☆116Apr 9, 2025Updated 10 months ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆210Jan 30, 2026Updated 2 weeks ago
- Some components that speed up and reduce resource cost for original ALLHiC☆14Jun 21, 2025Updated 7 months ago
- ☆12Nov 23, 2020Updated 5 years ago
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on Pore-C, HiFi-C/CiFi or Hi-C.☆87Jan 25, 2026Updated 3 weeks ago
- Genome Assembly 102☆17Apr 23, 2025Updated 9 months ago
- R package to draw syntenic plots in 3 different styles☆45Feb 2, 2026Updated 2 weeks ago
- The tools are used for displaying hic signal of genome☆24Jan 4, 2021Updated 5 years ago
- Unzip assembly graphs with Hi-C data and/or long reads.☆27Sep 20, 2024Updated last year
- Transfer HiFi read mappings from their own assembly contigs to a standard reference☆29Dec 30, 2025Updated last month
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆15Sep 17, 2025Updated 5 months ago
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆35Apr 23, 2025Updated 9 months ago
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆254Jan 5, 2026Updated last month
- parallelLastz: Running Lastz in parallel☆17Sep 13, 2024Updated last year
- ☆44May 8, 2024Updated last year
- A Hi-C scaffolding method☆22Dec 22, 2021Updated 4 years ago
- Code repository for the T2T-Y paper☆24Jul 11, 2023Updated 2 years ago
- Genome-wide TR catalog and variation clusters described in [Weisburd, Dolzhenko, et al. 2024]☆17Jan 30, 2026Updated 2 weeks ago
- extract MSAs from genome variation graphs☆34Sep 20, 2020Updated 5 years ago
- A tool for recovering synteny blocks from multiple alignment☆32Oct 18, 2021Updated 4 years ago