santeripuranen / SpydrPickLinks
SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
☆13Updated 3 years ago
Alternatives and similar repositories for SpydrPick
Users that are interested in SpydrPick are comparing it to the libraries listed below
Sorting:
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Bacterial GWAS analysis☆45Updated 3 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 7 months ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Discover and annotate the virome☆53Updated 2 weeks ago
- Recombination-free trees☆60Updated last month
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- Gene-flank analysis tool☆33Updated 10 months ago
- Genomewide Epistasis Analysis on Bacteria☆14Updated 5 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆55Updated 6 months ago
- MAG Circularization Method☆32Updated 3 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- Genome size estimation from long read overlaps☆62Updated last month
- A comprehensive and intuitive encapsulated OO class system for analyzing bacterial pangenomes in R.☆28Updated 2 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- MAGScoT - a MAG scoring and refinement tool☆37Updated last year
- strain-level analysis tools☆39Updated last year
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆30Updated last year
- Calculate assocations between genes and traits☆28Updated 7 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆22Updated 2 years ago
- Intra-species bacterial contamination detection☆25Updated 8 months ago
- Locus and lineage tests for bacterial GWAS☆29Updated 8 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 2 years ago