beiko-lab / areteLinks
AMR/VF LGT focused bacterial genomics analysis workflow
☆28Updated 9 months ago
Alternatives and similar repositories for arete
Users that are interested in arete are comparing it to the libraries listed below
Sorting:
- Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…☆32Updated 3 weeks ago
- Interpretative standards for AMR genotypes☆26Updated last month
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 8 months ago
- Bacterial GWAS analysis☆46Updated 2 months ago
- Strain Resolution ON Graphs☆49Updated 2 years ago
- KEGG Module Evaluation Tool☆32Updated 2 years ago
- Calculate assocations between genes and traits☆29Updated 9 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- MAG Circularization Method☆32Updated 2 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆18Updated last year
- Classify metagenomic contigs as eukaryotic or prokaryotic☆43Updated 2 years ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆22Updated 5 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆32Updated last month
- Assessing and Improving the quality of metagenomic assemblies☆30Updated 3 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Updated 3 years ago
- MAGScoT - a MAG scoring and refinement tool☆41Updated last year
- alignment-free coverage calculation for metagenomic binning >100 times faster☆48Updated 9 months ago
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆24Updated 5 months ago
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆22Updated last year
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 6 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆71Updated this week
- Downstream processing of VAMB binning for Viral Elucidation☆53Updated last year
- MDMcleaner the assessment, classification and refinement tool for microbial dark matter SAGs and MAGs☆23Updated 2 years ago
- ☆13Updated 8 years ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- Discover and annotate the virome☆58Updated 2 months ago
- A toolkit for prokaryotic comparative genomics☆51Updated 2 months ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆39Updated last year