Simulate metagenomic short reads from one or more populations.
☆26Jan 29, 2025Updated last year
Alternatives and similar repositories for reads-for-assembly
Users that are interested in reads-for-assembly are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Bacterial genomes finishing tool for structural insights on draft genomes☆23Sep 22, 2023Updated 3 years ago
- Convert QIIME files into Oligotyping subsets.☆15Dec 10, 2014Updated 11 years ago
- A very simple BLAST filtering pipeline☆20Mar 28, 2014Updated 12 years ago
- A repository with scripts to run pipeline that are commonly used in the Meren Lab☆11Feb 7, 2018Updated 8 years ago
- LMAS - Last (Meta)Genomic Assembler Standing☆11Dec 21, 2022Updated 3 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.
- Strain resolved metagenome simulator☆13Aug 11, 2018Updated 8 years ago
- Web content for Meren Lab☆12Updated this week
- Benchmark and toy datasets☆12Jan 8, 2025Updated last year
- Ensemble binning strategies for combining the output of multiple binning methods.☆23Mar 11, 2023Updated 3 years ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆52Feb 8, 2022Updated 4 years ago
- Set of useful functions and scripts for analyzing amplicon Miseq data.☆18Sep 27, 2016Updated 10 years ago
- Tools for phylogenetic data analysis including visualization and cluster-computing support.☆15Dec 18, 2021Updated 4 years ago
- De novo Extraction of Strains from MetAgeNomes☆72Jun 17, 2020Updated 6 years ago
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 6 years 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.
- A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).☆96Nov 24, 2025Updated 11 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆60Nov 3, 2023Updated 2 years ago
- PANPROVA: PANgenomic PROkaryotic eVolution of full Assemblies☆10Jun 14, 2026Updated 4 months ago
- Parametric sweep of simulated microbial communities and metagenomic sequencing.☆11Jul 15, 2022Updated 4 years ago
- ☆17May 22, 2023Updated 3 years ago
- software to identify primers that can distinguish genomes☆20Aug 31, 2026Updated 2 months ago
- Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation☆32May 25, 2021Updated 5 years ago
- µbinfie blog☆19Jul 21, 2025Updated last year
- Prediction of microbial interactions in complex communities☆14Aug 14, 2024Updated 2 years ago
- 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.
- Ancient Metagenome Assembler For Heavily Damaged Datasets☆12Oct 27, 2025Updated last year
- A simple script to display stuff on a world map with R and ggplot☆18Feb 17, 2026Updated 8 months ago
- MIX: Combining multiple assemblies from NGS data☆13Apr 14, 2016Updated 10 years ago
- SemiBin: metagenomics binning with self-supervised deep learning☆175Oct 13, 2026Updated 2 weeks ago
- localised duplicate detection on patterned flow cells☆10Feb 27, 2019Updated 7 years ago
- A repo to reproduce the experiments in the YACHT manuscript☆12Nov 2, 2023Updated 3 years ago
- PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied ann…☆25Feb 25, 2023Updated 3 years ago
- A Python package for Biopython that gives feature annotations from GenBank records a new and better life☆14Apr 27, 2016Updated 10 years ago
- MICROPHERRET: MICRObial PHEnotypic tRait ClassifieR using machine lEarning Techniques☆15Oct 25, 2026Updated last week
- 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 draft genome scaffolder that uses multiple reference genomes in a graph-based approach.☆47Feb 17, 2021Updated 5 years ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 5 years ago
- Scripts and tutorials on how to assemble individual microbial genomes from metagenomes☆80Jun 14, 2016Updated 10 years ago
- Annotate your metagenome assemblies☆11Jul 19, 2018Updated 8 years ago
- ☆15Oct 14, 2023Updated 3 years ago
- A straightforward bioinformatic pipeline for detecting a bacterial strain in one or more metagenome(s).☆18Jul 10, 2018Updated 8 years ago
- CAMITAX: Taxon labels for microbial genomes☆32Dec 14, 2023Updated 2 years ago