NorwegianVeterinaryInstitute / ALPPACALinks
A tooL for Prokaryotic Phylogeny And Clustering Analysis
☆13Updated 4 months ago
Alternatives and similar repositories for ALPPACA
Users that are interested in ALPPACA are comparing it to the libraries listed below
Sorting:
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆24Updated 2 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- Bacterial GWAS analysis☆46Updated last month
- Calculate assocations between genes and traits☆29Updated 9 months ago
- Recombination-free trees☆62Updated 3 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆59Updated 8 months ago
- Interpretative standards for AMR genotypes☆26Updated this week
- Predict plasmids from uncorrected long read data☆41Updated last month
- Fast pairwise transmission inference from single genome and/or metagenomic data☆22Updated 4 months ago
- Automated strain separation of low-complexity metagenomes☆53Updated 4 years ago
- Get microbial sequence data easier and faster☆28Updated 6 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- A workflow and scripts for large-scale antiSMASH analyses☆46Updated 8 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆31Updated last week
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated 3 weeks ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19Updated last year
- Order and orientation of complete bacterial genomes☆29Updated 5 months ago
- ☆24Updated 10 months ago
- Genome size estimation from long read overlaps☆74Updated last week
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Remove human reads from a sequencing run☆45Updated last week
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆13Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 4 months ago
- strain-level analysis tools☆39Updated last year
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago