Repository for codes, analyses and visualizations for the CAMI II challenges
☆14Sep 4, 2023Updated 2 years ago
Alternatives and similar repositories for second_challenge_evaluation
Users that are interested in second_challenge_evaluation are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- The binning tool with dynamic contrastive learning and deep language model☆23Nov 14, 2025Updated 6 months ago
- ☆17Updated this week
- Ensemble binning strategies for combining the output of multiple binning methods.☆22Mar 11, 2023Updated 3 years ago
- Code used to analyse and plot metadata of metagenomic binning tools☆14Aug 22, 2024Updated last year
- Snakemake pipeline for simulating shotgun metagenomic samples☆29Mar 13, 2026Updated 2 months ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- ☆77Mar 10, 2024Updated 2 years ago
- A repo to reproduce the experiments in the YACHT manuscript☆12Nov 2, 2023Updated 2 years ago
- ☆23Feb 7, 2022Updated 4 years ago
- Training scripts for BERTax☆12Jun 12, 2024Updated last year
- ☆16Jun 2, 2021Updated 4 years ago
- Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification☆14Apr 8, 2024Updated 2 years ago
- Pipeline for analyzing rare mutations in metagenome-assembled genomes☆10Apr 4, 2025Updated last year
- ☆10Jun 9, 2025Updated 11 months ago
- ☆21Sep 4, 2024Updated last year
- 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.
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆28May 13, 2026Updated last week
- The viral taxonomic assignment pipeline☆44Apr 16, 2026Updated last month
- alignment-free coverage calculation for metagenomic binning >100 times faster☆52May 8, 2026Updated 2 weeks ago
- ☆11Jun 3, 2025Updated 11 months ago
- Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…☆39Apr 7, 2026Updated last month
- ☆15Jan 28, 2026Updated 3 months ago
- FastSMC is a method to quickly and accurately estimate pairwise identical-by-descent (IBD) regions in the genome. FastSMC estimates the a…☆15Sep 2, 2021Updated 4 years ago
- ☆19Nov 11, 2024Updated last year
- AMBER: Assessment of Metagenome BinnERs☆33Apr 14, 2026Updated last month
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆52Mar 26, 2026Updated last month
- More scalable dereplication for metagenome assembled genomes☆81Updated this week
- ☆17Oct 7, 2024Updated last year
- ☆11Sep 7, 2023Updated 2 years ago
- Computes various SV statistics☆14Oct 12, 2023Updated 2 years ago
- Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.☆89May 12, 2026Updated last week
- Convert GTDB taxonomy to NCBI taxdump format☆75Aug 24, 2023Updated 2 years ago
- A functional profiler for metagenomes using FracMinHash☆21Apr 20, 2026Updated last month
- A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.☆50Feb 5, 2026Updated 3 months 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.
- ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs☆37Oct 24, 2025Updated 6 months ago
- CAMISIM: Simulating metagenomes and microbial communities☆225Updated this week
- A Spatial Transcriptomics Geospatial Profile Recovery System Tool through Anchors☆19Jul 24, 2025Updated 9 months ago
- SemiBin: metagenomics binning with self-supervised deep learning☆162Apr 25, 2026Updated 3 weeks ago
- ViralCC: leveraging metagenomic proximity-ligation to retrieve complete viral genomes☆18Feb 3, 2026Updated 3 months ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆41Feb 9, 2022Updated 4 years ago
- ☆12Jun 7, 2024Updated last year