Strain resolved metagenome simulator
☆13Aug 11, 2018Updated 8 years ago
Alternatives and similar repositories for StrainMetaSim
Users that are interested in StrainMetaSim are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Find Co-Abundant Groups of Genes☆12Aug 3, 2020Updated 6 years ago
- De novo Extraction of Strains from MetAgeNomes☆72Jun 17, 2020Updated 6 years ago
- Parametric sweep of simulated microbial communities and metagenomic sequencing.☆11Jul 15, 2022Updated 4 years ago
- Ensemble binning strategies for combining the output of multiple binning methods.☆23Mar 11, 2023Updated 3 years ago
- Paired reads mapping on de Bruijn graph☆13Jan 15, 2019Updated 7 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.
- An algorithm for recovering haplotypes from metagenomes☆30Jun 29, 2021Updated 5 years ago
- A set of programs for the taxonomic analysis of genetic sequences☆15Jun 12, 2023Updated 3 years ago
- ☆24Dec 5, 2018Updated 7 years ago
- A Perl pipeline for identifying marker genes and build phylogenetic trees for a set of genomes☆14Jun 19, 2017Updated 9 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆50Apr 14, 2020Updated 6 years ago
- Automatic eukaryotic taxonomic classification☆33May 9, 2025Updated last year
- skandiver is a program for identifying mobile genetic elements (prophages, plasmids, transposases, etc.) from assembled whole genome sequ…☆16Nov 20, 2025Updated 11 months ago
- Pipeline for identification of eukaryotic contigs in metagenomic assemblies☆14Mar 14, 2024Updated 2 years ago
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆45Sep 3, 2024Updated 2 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.
- Population genomics from metagenomes☆13Sep 1, 2024Updated 2 years ago
- Improvement of metagenome-assembled genomes☆59Mar 17, 2020Updated 6 years ago
- Accurate and robust inference of microbial growth dynamics from metagenomic sequencing☆21May 11, 2022Updated 4 years ago
- An integrated pipeline for estimating strain-level genomic variation from metagenomic data☆134Oct 6, 2023Updated 3 years ago
- Database and pipeline for protein structure-guided annotations of ecologically relevant functions at the metagenome scale.☆34Nov 2, 2025Updated 11 months ago
- Various scripts used at the EnvGen group, directed towards metagenomic analysis.☆15Apr 28, 2020Updated 6 years ago
- Whole genome focused array SNP typer☆14Feb 2, 2026Updated 8 months ago
- ☆18Jun 5, 2026Updated 4 months ago
- Metagenomic species profiling with enhanced coverage of the human gut microbiome☆26May 18, 2024Updated 2 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.
- Pipeline to run qiime2 with snakemake☆17Apr 17, 2020Updated 6 years ago
- misFinder: Identify mis-assemblies in an unbiased manner using reference and paired-end reads☆10Oct 17, 2015Updated 11 years ago
- ☆15Oct 14, 2023Updated 3 years ago
- A selection of short scripts for analyzing microbial genomes☆14Jun 26, 2018Updated 8 years ago
- A command line tool for quickly visualizing phylogenetic tree via a single command in terminal.☆10Apr 9, 2019Updated 7 years ago
- scripts for microbiome analysis☆12Jul 25, 2024Updated 2 years ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆43Oct 19, 2026Updated last week
- StrainEst - abundance estimation of strains☆19Jan 17, 2020Updated 6 years ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆49Mar 6, 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.
- Recovery of eukaryotic genomes using contrastive learning. A specialized metagenomic binning tool designed for recovering high-quality eu…☆26Oct 20, 2026Updated last week
- Set of utilities on sequences and BAM files☆28Oct 27, 2021Updated 5 years ago
- a simulator of long read sequencing in pacbio and oxford nanopore☆15Oct 13, 2016Updated 10 years ago
- This repository contains all CWL descriptions of the MGnify pipeline version 5.0.☆24Apr 21, 2026Updated 6 months ago
- Repository for the T2D/obesity experiments run in the Metapheno paper☆15Feb 6, 2019Updated 7 years ago
- ☆10Mar 3, 2022Updated 4 years ago
- A straightforward bioinformatic pipeline for detecting a bacterial strain in one or more metagenome(s).☆18Jul 10, 2018Updated 8 years ago