NorwegianVeterinaryInstitute / ALPPACALinks
A tooL for Prokaryotic Phylogeny And Clustering Analysis
☆13Updated 3 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
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated 3 weeks ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- Recombination-free trees☆60Updated 2 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- frame-shift correction for long-read (meta)genomics☆33Updated last year
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆23Updated 2 years ago
- Bacterial GWAS analysis☆46Updated last week
- Get microbial sequence data easier and faster☆28Updated 6 years ago
- Genome size estimation from long read overlaps☆67Updated last week
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 2 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- Predict plasmids from uncorrected long read data☆41Updated last week
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 3 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated last week
- TAXnomic Profile Aggregation and STAndardisation☆41Updated 2 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆22Updated 3 months ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆60Updated 2 weeks ago
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆55Updated 6 months ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated last month
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 8 months ago
- Intra-species bacterial contamination detection☆25Updated 8 months ago
- Interpretative standards for AMR genotypes☆25Updated 2 weeks ago
- Remove human reads from a sequencing run☆40Updated 3 months ago
- ☆24Updated 9 months ago
- Calculate assocations between genes and traits☆28Updated 7 months ago
- tool to determine optimal refrerence genome given a set of fasta files☆15Updated 2 years ago