☆32Sep 21, 2023Updated 3 years ago
Alternatives and similar repositories for Haploflow
Users that are interested in Haploflow are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- exploring viral genome assembly with variation graph tools☆20May 18, 2020Updated 6 years ago
- QuasiModo: Assessing viral genomic analysis methods on HCMV strain mixture☆12Sep 22, 2022Updated 4 years ago
- A proviral intactness pipeline.☆10May 31, 2023Updated 3 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- An RNA virus strain-level identification tool for short reads.☆23Apr 6, 2026Updated 7 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- viralFlye pipeline☆19Aug 12, 2024Updated 2 years ago
- Variant call verification☆19May 12, 2025Updated last year
- Metalign: efficient alignment-based metagenomic profiling via containment min hash☆31Sep 12, 2023Updated 3 years ago
- Clustering tool optimized for sparse distance matrices: ~16M elements with ~190M connections clustered in minutes.☆16Sep 12, 2026Updated last month
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆21Oct 20, 2023Updated 3 years ago
- Quasitools is a collection of tools for analysing viral quasispecies data.☆27Nov 25, 2021Updated 4 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆71Apr 10, 2025Updated last year
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Jan 29, 2023Updated 3 years ago
- Accurate, resource-frugal and deterministic DNA sequence classifier.☆38Updated this week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Strain Resolution ON Graphs☆50Jul 18, 2023Updated 3 years ago
- Full-length de novo viral haplotype reconstruction from noisy long reads☆22Nov 6, 2023Updated 3 years ago
- Screening Historical Events of Recombination in a Phylogeny via Ancestral Sequences☆11Sep 3, 2025Updated last year
- V-pipe is a pipeline designed for analysing NGS data of short viral genomes☆147Aug 2, 2026Updated 3 months ago
- The repository for the Viral Genomics and Bioinformatics 2022 course☆11Jul 5, 2024Updated 2 years ago
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆49Sep 18, 2026Updated last month
- reference-based long read assemblies of bacterial genomes☆52Aug 9, 2021Updated 5 years ago
- Alignment and variant-calling pipeline for Illumina HIV sequences.☆11May 19, 2020Updated 6 years ago
- MetagenOmic read Re-Assigner and abundance quantifier☆22Jun 24, 2026Updated 4 months ago
- 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.
- Virus Protein Structural Analysis Toolkit☆15Sep 9, 2024Updated 2 years ago
- Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long read…☆12Jan 22, 2020Updated 6 years ago
- Pipeline to automatically analyse SARS-CoV-2 Whole genome sequencing Illumina data obtained using EasySeq SARS-CoV-2/COVID-19 Whole Geno…☆15Jul 26, 2022Updated 4 years ago
- Haplotype-aware genome assembly toolkit☆30Jan 8, 2020Updated 6 years ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆90Sep 18, 2026Updated last month
- ttt☆10Apr 12, 2026Updated 6 months ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆59Mar 13, 2025Updated last year
- parallel algorithms for small hitting set approximations☆11Apr 29, 2021Updated 5 years ago
- VGEA (Viral Genomes Easily Analyzed) is a pipeline for analysis of RNA virus next-generation sequencing data.☆19Sep 12, 2021Updated 5 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Phylogenetics between and within hosts at once, all along the genome.☆51Oct 2, 2024Updated 2 years ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆121Dec 13, 2024Updated last year
- Importing vg json graphs to Python data structures.☆12Nov 11, 2020Updated 5 years ago
- VStrains is a de novo approach for reconstructing strains from viral quasispecies.☆25Feb 22, 2026Updated 8 months ago
- ☆11Jul 3, 2022Updated 4 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆66Oct 29, 2026Updated last week
- Systematic ProtEin AnnotatoR☆19Sep 20, 2025Updated last year