microbial-pangenomes-lab / microGWAS
Bacterial GWAS analysis
☆32Updated last month
Related projects ⓘ
Alternatives and complementary repositories for microGWAS
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆49Updated this week
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…☆40Updated 3 weeks ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆25Updated 3 weeks ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆25Updated last week
- Discover and annotate the virome☆31Updated last month
- Recombination-free trees☆56Updated last year
- Calculate assocations between genes and traits☆19Updated 3 weeks ago
- A python library for predicting phage lifestyle based on genome sequence☆35Updated last year
- Microbial agile accurate SNP Typer☆29Updated 10 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆22Updated 4 months ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Gene-flank analysis tool☆26Updated 6 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆16Updated 4 months ago
- IslandPath standalone software☆31Updated last year
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆28Updated last year
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆25Updated last week
- Strain-level haplotyping for metagenomes with short or long-reads.☆41Updated 4 months ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆29Updated 2 years ago
- Downstream processing of VAMB binning for Viral Elucidation☆46Updated 4 months ago
- ☆17Updated 2 months ago
- BEAV: Bacterial Element Annotation reVamped☆59Updated 3 weeks ago
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆18Updated 7 months ago
- Gene Absence Presence Identification tool.☆26Updated last year
- ☆24Updated last month
- Pipeline for metagenome and metatranscriptome joint assembly☆18Updated last year
- Prophage Activity Estimator☆26Updated 5 months ago
- ☆23Updated 9 months ago
- Predict plasmids from uncorrected long read data☆39Updated 4 years ago
- A toolkit for prokaryotic comparative genomics☆25Updated this week