Metagenomics-related extended functionalities to samtools
☆22Jul 6, 2023Updated 2 years ago
Alternatives and similar repositories for msamtools
Users that are interested in msamtools are comparing it to the libraries listed below
Sorting:
- A microbiome analysis toolkit for R☆25Aug 21, 2023Updated 2 years ago
- Code for de novo discovery of viral families in virome data☆16Jun 20, 2024Updated last year
- Various functions for analysis of microbial community data☆47Oct 1, 2025Updated 5 months ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Nov 9, 2022Updated 3 years ago
- A metatranscriptomic pipeline optimized for the study of microeukaryotes.☆17Dec 30, 2025Updated 2 months ago
- Read alignment statistics for metagenomics☆390Jan 16, 2026Updated last month
- Downstream processing of VAMB binning for Viral Elucidation☆54Jul 3, 2024Updated last year
- MAG Circularization Method☆32Nov 4, 2025Updated 4 months ago
- Viroid-like circRNA discovery and analysis suite☆19Nov 11, 2023Updated 2 years ago
- Collection of notebooks describing the basic analysis workflow for a 16S rRNA gene amplicon sequencing project☆12May 25, 2022Updated 3 years ago
- ☆16Feb 23, 2026Updated last week
- Metagenomics-focused BAM file manipulation☆15Jul 8, 2019Updated 6 years ago
- STAMPS 2018 course☆15Aug 8, 2018Updated 7 years ago
- A toolbox for improving metagenome-assembled genomes.☆64Jun 2, 2021Updated 4 years ago
- CCTyper: Automatic detection and subtyping of CRISPR-Cas operons☆106Feb 15, 2024Updated 2 years ago
- Database of virus RdRP barcode sequences☆16Jul 5, 2024Updated last year
- Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin☆15Sep 24, 2024Updated last year
- Metagenomics Taxonomic Reads Assembly Single-Species☆16May 25, 2023Updated 2 years ago
- R package to predict microbial loads☆17Updated this week
- A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.☆21Nov 25, 2025Updated 3 months ago
- Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!☆178Jan 7, 2026Updated last month
- Generate de novo taxonomy of full length 16S rRNA sequences directly from environmental samples☆20Nov 23, 2024Updated last year
- A tool for scanning FASTA protein sequences against a library of Pfam HMMs☆27Aug 23, 2022Updated 3 years ago
- viralFlye pipeline☆18Aug 12, 2024Updated last year
- On-Target and Off-Target Scoring Algorithms for CRISPR gRNAs☆25Nov 21, 2025Updated 3 months ago
- Fast Whole-Genome Similarity (ANI) Estimation☆448Dec 16, 2025Updated 2 months ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆48Apr 14, 2020Updated 5 years ago
- Run_dbcan V5☆49Feb 15, 2026Updated 2 weeks ago
- Gmove is a gene prediction tool☆21Oct 9, 2024Updated last year
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆22May 14, 2023Updated 2 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆60Nov 3, 2023Updated 2 years ago
- viralComplete: BLAST-based viral completeness verification☆24Oct 4, 2021Updated 4 years ago
- MAGinator - Accurate SNV calling and profiling of MAGs☆26May 21, 2025Updated 9 months ago
- Machine learning for accurate identification and classification of CRISPR-Cas systems☆23Dec 20, 2024Updated last year
- Assign taxonomic ranks based on evolutionary divergence.☆23Updated this week
- Scalable creating/updating of metagenome profiling databases☆62Jun 25, 2025Updated 8 months ago
- This is a comprehensive database for fast and accurately analyzing the phosphorus cycling genes.☆33Jul 12, 2022Updated 3 years ago
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆226Jan 20, 2026Updated last month
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆582Feb 21, 2026Updated last week