andersgs / harrietr
An `R` package for various phylogenetic and evolutionary biology data manipulations
☆12Updated 6 years ago
Alternatives and similar repositories for harrietr:
Users that are interested in harrietr are comparing it to the libraries listed below
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 6 years ago
- TAXnomic Profile Aggregation and STAndardisation☆35Updated 4 months ago
- Predict plasmids from uncorrected long read data☆39Updated 5 years ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆36Updated this week
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆24Updated 5 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 2 years ago
- ☆17Updated 8 months ago
- Read contamination removal☆24Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- Influenza genome analysis Nextflow workflow☆19Updated last month
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated 2 years ago
- Resolving Species Level Classification Using Emu☆12Updated 8 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆19Updated 8 months ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆12Updated 11 months ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Updated 3 months ago
- Plasmid analysis using rearrangement distances☆31Updated 3 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆28Updated 8 months ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- A script for comparing old vs new versions of genome annotations☆20Updated last year
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆25Updated 10 months ago
- Detect contigs of complete circular genomes☆22Updated 5 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆41Updated 4 years ago