dhelekal / CaveDiveLinks
☆18Updated last year
Alternatives and similar repositories for CaveDive
Users that are interested in CaveDive are comparing it to the libraries listed below
Sorting:
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Updated 11 months ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated 4 months ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆24Updated 6 years ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆18Updated last year
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆39Updated last year
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆15Updated 3 years ago
- Recombination-free trees☆63Updated 5 months ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated 2 months ago
- Remove human reads from a sequencing run☆47Updated last month
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Updated 3 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- Automated strain separation of low-complexity metagenomes☆52Updated 4 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Genome size estimation from long read overlaps☆80Updated 2 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Updated 3 years ago
- Read contamination removal☆25Updated 2 years ago
- Intra-species bacterial contamination detection☆25Updated last week
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆34Updated last month
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 10 months ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 6 years ago
- software to identify primers that can distinguish genomes☆20Updated 3 weeks ago
- Get microbial sequence data easier and faster☆28Updated 6 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 weeks ago
- Neptune: Genomic Signature Discovery☆21Updated last year
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated 5 months ago
- A set of scripts for calculating pairwise SNP distance☆44Updated 3 years ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆15Updated 9 months ago