Mapping pipeline for data generated using Arima-HiC
☆84May 22, 2024Updated last year
Alternatives and similar repositories for mapping_pipeline
Users that are interested in mapping_pipeline are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆189May 17, 2024Updated last year
- Yet another Hi-C scaffolding tool☆176Nov 4, 2024Updated last year
- Simple library/pipeline to generate and handle Hi-C data.☆39Feb 13, 2026Updated 2 months ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆179Oct 20, 2024Updated last year
- Arima Capture HiC pipeline (Arima-CHiC)☆13May 16, 2024Updated last year
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- k-mer based assembly evaluation☆341Jun 28, 2024Updated last year
- OpenGL Powered Pretext Contact Map Viewer☆59Mar 30, 2026Updated 2 weeks ago
- Software to assemble contigs/scaffolds into chromosomes using Hi-C data☆28Sep 26, 2024Updated last year
- Evaluate variant calls and its combination with k-mer multiplicity☆68Dec 2, 2022Updated 3 years ago
- assembly evaluation tool☆35May 11, 2022Updated 3 years ago
- A Hi-C scaffolding method☆22Dec 22, 2021Updated 4 years ago
- Identify and find telomeres, or telomeric repeats in a genome.☆164Nov 24, 2025Updated 4 months ago
- Large genome reassembly based on Hi-C data, continuation of GRAAL☆43Mar 20, 2024Updated 2 years ago
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 4 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A One-Click System for Analyzing Loop-Resolution Hi-C Experiments☆479Aug 31, 2025Updated 7 months ago
- ☆13Jan 20, 2026Updated 2 months ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆194May 11, 2025Updated 11 months ago
- A genome completeness evaluation tool based on miniprot☆238Sep 18, 2025Updated 6 months ago
- Generate an interactive dot plot from mummer or minimap alignments☆213Jan 17, 2024Updated 2 years ago
- Phase reads, assemble haplotypes and detect SVs☆19Nov 11, 2020Updated 5 years ago
- Unzip assembly graphs with Hi-C data and/or long reads.☆27Sep 20, 2024Updated last year
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆209Nov 18, 2022Updated 3 years ago
- A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files☆37Jun 6, 2022Updated 3 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- 🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies☆124Feb 24, 2026Updated last month
- Genome scaffolding based on HiC data in heterozygous and high ploidy genomes☆60Jan 3, 2025Updated last year
- ☆78Dec 4, 2019Updated 6 years ago
- HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C☆26Jan 14, 2021Updated 5 years ago
- ☆10Jun 13, 2020Updated 5 years ago
- 3D de novo assembly (3D DNA) pipeline☆223Nov 29, 2023Updated 2 years 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…☆455Apr 7, 2026Updated last week
- FastK based version of Merqury☆33Jan 19, 2026Updated 2 months ago
- haplotypic duplication identification tool☆280Oct 30, 2025Updated 5 months ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- Improved Phased Assembler☆28Mar 11, 2022Updated 4 years ago
- VGP repository for the genome assembly working group☆193Mar 31, 2026Updated 2 weeks ago
- ☆10Jun 9, 2020Updated 5 years ago
- Fast genome analysis from unassembled short reads☆318Apr 8, 2024Updated 2 years ago
- Paired REad TEXTure Mapper. Converts SAM formatted read pairs into genome contact maps.☆26Mar 27, 2026Updated 2 weeks ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆108Jun 6, 2021Updated 4 years ago