carpentries-incubator / pangenomicsLinks
Pangenome Analysis in Prokaryotes Lesson
☆13Updated 10 months ago
Alternatives and similar repositories for pangenomics
Users that are interested in pangenomics are comparing it to the libraries listed below
Sorting:
- ☆14Updated 3 weeks ago
- Bioinformatic Tools for study Evolution of metabolic diversity☆34Updated last year
- Hands-on workflow for learning metagenomics including DNA mapping, binning, QC and annotation. Answers and example code available in the…☆12Updated 3 years ago
- ☆16Updated last month
- Protocol for finding informative protein families and then using them to score omic samples☆18Updated 2 years ago
- A pipeline for for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets☆27Updated 5 months ago
- lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters☆37Updated 2 months ago
- A repository for the lessons and notebooks used for Binder tutorials☆19Updated 4 years ago
- Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data☆14Updated 3 weeks ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆35Updated 3 years ago
- Pathway Tools multiprocessing wrapper (for PathoLogic).☆14Updated 2 months ago
- Tool to estimate genome quality of microbial eukaryotes☆38Updated 5 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆59Updated last week
- Repository containing up-to-date definitions and models for the detection of macromolecular systems with MacSyFinder.☆11Updated 5 years ago
- Trans-Kingdom Marker Gene Pipeline for Taxonomic Profiling of Human Metagenomes☆19Updated last year
- SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.☆23Updated 3 months ago
- KEGG Module Evaluation Tool☆30Updated last year
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆21Updated last year
- the toolbox for Microbial and personalized GEM, REactiobiome and community NEtwork modelling☆11Updated last year
- Bacterial GWAS analysis☆40Updated last month
- Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)☆42Updated 6 months ago
- Downstream processing of VAMB binning for Viral Elucidation☆50Updated 11 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆45Updated last month
- Pipeline for major biological analyses.☆35Updated 3 years ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆14Updated last year
- Pipelines used in the lab.☆12Updated 3 months ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆31Updated 2 years ago
- a python package for automated generation of phylogenetic trees from genbank files☆22Updated 3 months ago
- This repository contains scripts used in the manuscript "Massive expansion of human gut bacteriophage diversity"☆20Updated 4 years ago
- The Microbial Co-occurrence Network Explorer☆21Updated last year