dhelekal / CaveDiveLinks
β17Updated last year
Alternatives and similar repositories for CaveDive
Users that are interested in CaveDive are comparing it to the libraries listed below
Sorting:
- Phylogenetic maximum representation sampling: choosing most representative strains or taxaβ38Updated 3 months ago
- Mandrake πΏ/π¨βπ¬π¦ β Fast visualisation of the population structure of pathogens using Stochastic Cluster Embeddingβ38Updated 4 months ago
- π π« Trim, circularise and orient long read bacterial genome assembliesβ26Updated 5 years ago
- Genome size estimation from long read overlapsβ58Updated last week
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasetsβ29Updated last year
- Read contamination removalβ25Updated last year
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenomeβ49Updated 2 years ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.β13Updated 3 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigsβ28Updated 2 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.β52Updated 3 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformaticsβ17Updated last year
- Main development repository for SpreadGLβ18Updated 9 months ago
- PoSeiDon: positive selection detection and recombination analysis pipelineβ38Updated 4 months ago
- Recombination-free treesβ58Updated 3 months ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)β36Updated last year
- β‘οΈπ§¬ FastMLST: A multi-core tool for multilocus sequence typing of draft genome assembliesβ28Updated 4 months ago
- A set of scripts for calculating pairwise SNP distanceβ41Updated 2 years ago
- Gene-flank analysis toolβ28Updated 6 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes databaseβ42Updated 4 years ago
- An `R` package for various phylogenetic and evolutionary biology data manipulationsβ12Updated 7 years ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenomeβ30Updated last month
- Assembly based core genome SNP alignments for bacteriaβ25Updated 5 years ago
- Interactive, web tool for exploring pan-genome of bacterial strainsβ46Updated 2 years ago
- Intra-species bacterial contamination detectionβ25Updated 5 months ago
- β26Updated last year
- Phylogenetic compression of extremely large genome collections [661k βππ²ππΆπ | BIGSIdata βπ°π΄ππΆπ | AllTheBact'23 βπ³π±ππΆπ]β37Updated 3 months ago
- strain-level analysis toolsβ38Updated 8 months ago
- Automated strain separation of low-complexity metagenomesβ51Updated 3 years ago
- Phylogeny Enhanded Prediction of PAN-genomeβ40Updated 4 years ago
- Code to create a PRG from a Multiple Sequence Alignment fileβ25Updated 2 weeks ago