fast sequence evolution simulation for SARS-CoV-2 and similar
☆24Apr 11, 2025Updated last year
Alternatives and similar repositories for phastSim
Users that are interested in phastSim are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Cython API for the Mutation Annotated Tree (MAT) Online Phylogenetics Toolkit☆14May 28, 2025Updated 10 months ago
- the we-flyin WFA-guided ultralong tiling sequence aligner☆10May 13, 2021Updated 4 years ago
- PAGAN2 multiple sequence aligner☆12Jul 2, 2024Updated last year
- A Python library for generating random phylogenetic trees and related data☆13Jul 4, 2022Updated 3 years ago
- Mycobacterium tuberculosis complex lineage typing☆10Jun 22, 2025Updated 9 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Estimating time trees from very large phylogenies☆28Jul 21, 2024Updated last year
- Lightweight bioinformatics pipeline for microbial genome recovery☆18Oct 23, 2025Updated 5 months ago
- Deep learning for Metagenome Assembly Error Detection☆25Nov 30, 2020Updated 5 years ago
- breakfast is a simple and fast tool for clustering SARS-CoV-2 genomes using precalculated sequence features (e.g. nucleotide substitution…☆11Mar 12, 2026Updated last month
- Library of sketching functions used by PopPUNK☆31Mar 31, 2025Updated last year
- ☆30Mar 6, 2025Updated last year
- a simple tool for listing conda environments with descriptions☆15Mar 28, 2025Updated last year
- ☆12Jul 21, 2025Updated 8 months ago
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated last year
- Serverless GPU API endpoints on Runpod - Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- A Python wrapper for the bbhash library for Minimal Perfect Hashing☆19Oct 26, 2025Updated 5 months ago
- ☆16May 12, 2023Updated 2 years ago
- Automated Detection and Qualification of Differential Methylation☆16Nov 21, 2023Updated 2 years ago
- ☆13Nov 1, 2022Updated 3 years ago
- A dotplot application for DNA/RNA sequence☆11Nov 28, 2022Updated 3 years ago
- Metagenomic species profiling with enhanced coverage of the human gut microbiome☆25May 18, 2024Updated last year
- ☆15Feb 18, 2025Updated last year
- Simple terminal alignment viewer☆87Feb 2, 2026Updated 2 months ago
- MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.☆63Mar 15, 2026Updated 3 weeks ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Main development repository for SpreadGL☆21Sep 30, 2024Updated last year
- Follow up to Grace Blackwell's 661k dataset, for 2023☆138Updated this week
- ☆44Feb 13, 2026Updated 2 months ago
- Efficient low-divergence mapping of long reads in minimizer space☆69Oct 7, 2023Updated 2 years ago
- fork of the GPU genome aligner☆39Mar 27, 2026Updated 2 weeks ago
- Repetitive motif detection by Assembly of Repetitive K-mers. RepARK is free for academic and non-profit use. By downloading you agree wit…☆16Sep 16, 2024Updated last year
- orthology assignment using phylogenetic and network analyses☆54Jan 21, 2026Updated 2 months ago
- A lightweight library for working with PAF (Pairwise mApping Format) files☆30May 3, 2022Updated 3 years ago
- Automatically exported from code.google.com/p/prank-msa☆33Mar 19, 2026Updated 3 weeks 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.
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Mar 5, 2018Updated 8 years ago
- VGsim is a fast and scalable simulator of viral genealogies during global pandemic.☆17Oct 2, 2025Updated 6 months ago
- Exploring the conformational ensembles of protein-protein complexes with transformer-based generative neural networks☆33Jun 9, 2024Updated last year
- A placeholder for all my random scripts. Some scripts might eventually graduate and go to their own projects, so don't be surprised if a…☆17Nov 24, 2025Updated 4 months ago
- An experimental tool to estimate the similarity between all pairs of contigs☆40Apr 12, 2021Updated 5 years ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Dec 2, 2024Updated last year
- CAMITAX: Taxon labels for microbial genomes☆31Dec 14, 2023Updated 2 years ago