Set of utilities on sequences and BAM files
☆27Oct 27, 2021Updated 4 years ago
Alternatives and similar repositories for cmseq
Users that are interested in cmseq are comparing it to the libraries listed below
Sorting:
- Reference-free Binning of Metagenomics Long Reads using Coverage and Composition☆20Sep 10, 2024Updated last year
- ccfind - circular complete genome finder with clues of terminal redundancy☆16Feb 10, 2026Updated 2 weeks ago
- Snakemake workflow to map and quantify microbial genomes in metagenomic reads☆13Oct 10, 2025Updated 4 months ago
- Tool to estimate genome quality of microbial eukaryotes☆38Aug 1, 2025Updated 6 months ago
- ☆63Feb 27, 2024Updated 2 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆54Sep 7, 2025Updated 5 months ago
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆17May 18, 2020Updated 5 years ago
- Improvement of metagenome-assembled genomes☆54Mar 17, 2020Updated 5 years ago
- ☆57Feb 18, 2026Updated last week
- AMBER: Assessment of Metagenome BinnERs☆33Jan 6, 2026Updated last month
- ☆36Nov 20, 2023Updated 2 years ago
- SemiBin: metagenomics binning with self-supervised deep learning☆155Feb 19, 2026Updated last week
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆78Jun 17, 2024Updated last year
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Apr 1, 2023Updated 2 years ago
- Scalable creating/updating of metagenome profiling databases☆62Jun 25, 2025Updated 8 months ago
- DAS Tool☆168May 2, 2024Updated last year
- ☆24Dec 5, 2018Updated 7 years ago
- Automatic eukaryotic taxonomic classification☆29May 9, 2025Updated 9 months ago
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆33Aug 22, 2024Updated last year
- This is the supplementary code for CRC-multi-kingdom☆17Nov 8, 2021Updated 4 years ago
- Phasing for metagenomics using PacBio long reads☆16Jul 14, 2021Updated 4 years ago
- Identify and remove contaminants from metagenome-assembled genomes☆18Feb 16, 2024Updated 2 years ago
- LRBinner is a long-read binning tool published in WABI 2021 proceedings and AMB.☆32May 30, 2023Updated 2 years ago
- Assessing the quality of metagenome-derived genome bins using machine learning☆251Mar 20, 2025Updated 11 months ago
- Discovery of conserved gene clusters in multiple genomes☆124Jan 16, 2026Updated last month
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆54Oct 24, 2025Updated 4 months ago
- A very simple BLAST filtering pipeline☆19Mar 28, 2014Updated 11 years ago
- ViralCC: leveraging metagenomic proximity-ligation to retrieve complete viral genomes☆18Feb 3, 2026Updated 3 weeks ago
- OPERA-MS - Hybrid Metagenomic Assembler☆99Jul 3, 2024Updated last year
- Batch effects removal for microbiome data via conditional quantile regression☆32Aug 23, 2022Updated 3 years ago
- Python package for detection of chimerism and contamination in prokaryotic genomes.☆81Nov 23, 2023Updated 2 years ago
- Parallel/Homoplasic SNP Finder☆21May 3, 2023Updated 2 years ago
- ARG normalization by mapping to the ARO ontology.☆62Jul 30, 2025Updated 7 months ago
- ☆38Dec 6, 2023Updated 2 years ago
- gutSMASH☆57Oct 3, 2025Updated 4 months ago
- An algorithm for clustering metagenomic sequences.☆40Dec 12, 2025Updated 2 months ago
- 🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs☆69Sep 26, 2024Updated last year
- Classify metagenomic contigs as eukaryotic or prokaryotic☆43Feb 17, 2023Updated 3 years ago
- MAGScoT - a MAG scoring and refinement tool☆43Oct 10, 2024Updated last year