V-pipe is a pipeline designed for analysing NGS data of short viral genomes
☆147Jun 18, 2026Updated 2 weeks ago
Alternatives and similar repositories for V-pipe
Users that are interested in V-pipe are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆19Nov 24, 2025Updated 7 months ago
- Repo for the software suite ShoRAH (Short Reads Assembly into Haplotypes)☆41Feb 24, 2023Updated 3 years ago
- VILOCA: VIral LOcal haplotype reconstruction and mutation CAlling for short and long read data☆24Oct 21, 2025Updated 8 months ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- VGEA (Viral Genomes Easily Analyzed) is a pipeline for analysis of RNA virus next-generation sequencing data.☆20Sep 12, 2021Updated 4 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- A containerized bioinformatics pipeline for viral metagenomic data analysis☆39Apr 9, 2026Updated 2 months ago
- ☆32Sep 21, 2023Updated 2 years ago
- Probabilistic inference of viral quasispecies subject to recombination (viral haplotype reconstruction).☆20May 3, 2017Updated 9 years ago
- Full-length de novo viral haplotype reconstruction from noisy long reads☆21Nov 6, 2023Updated 2 years ago
- ngshmmalign is a profile HMM aligner for NGS reads designed particularly for small genomes (such as those of RNA viruses like HIV-1 and H…☆10May 3, 2018Updated 8 years ago
- The ARTIC fieldbioinformatics pipeline☆133Jun 25, 2026Updated last week
- Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation☆115Jun 18, 2026Updated 2 weeks ago
- Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement☆259May 26, 2026Updated last month
- iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.☆136Jun 26, 2026Updated last week
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- a tool for designing primer panels for multiplex PCR.☆108Feb 5, 2024Updated 2 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- a novel encoding method for viral identification in metagenomics☆15Sep 20, 2023Updated 2 years ago
- ☆30Mar 6, 2025Updated last year
- REINDEER REad Index for abuNDancE quERy☆56Jul 6, 2025Updated 11 months ago
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 6 years ago
- C++ tools for NCBI taxonomy tasks☆12Jun 26, 2025Updated last year
- exploring viral genome assembly with variation graph tools☆20May 18, 2020Updated 6 years ago
- de novo virus assembler of Illumina paired reads☆58May 17, 2021Updated 5 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.
- ☆13Jan 23, 2020Updated 6 years ago
- The uncompromising Jupyter notebook formatter.☆14Jan 26, 2024Updated 2 years ago
- Depth-weighted De-Mixing☆134Updated this week
- viral-ngs: command line tools and wrappers for processing raw viral genomic data☆196Jun 24, 2026Updated last week
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆49May 14, 2026Updated last month
- Reference-guided multiple sequence alignment of viral genomes☆73May 30, 2026Updated last month
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆152Jun 25, 2026Updated last week
- ☆25Dec 2, 2022Updated 3 years ago
- Exploring the "dusk matter" of the RNA virosphere☆39Mar 25, 2022Updated 4 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Hidden Markov Model based Copy number caller☆20Dec 9, 2025Updated 6 months ago
- Summarise nucleotide counts at a set of positions in a BAM file to search for mixtures☆13Apr 5, 2022Updated 4 years ago
- WtP: Phage identification via nextflow and docker or singularity☆107Mar 19, 2026Updated 3 months ago
- Assembly and intrahost / low-frequency variant calling for viral samples☆15Feb 12, 2020Updated 6 years ago
- ATLAS - Three commands to start analyzing your metagenome data☆405May 28, 2026Updated last month
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆40Apr 6, 2026Updated 2 months ago
- VirID: An integrated platform for the discovery and characterization of RNA Viruses☆26Jan 8, 2026Updated 5 months ago