dhelekal / CaveDive
☆17Updated 7 months ago
Alternatives and similar repositories for CaveDive:
Users that are interested in CaveDive are comparing it to the libraries listed below
- Genome size estimation from long read overlaps☆47Updated last month
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆36Updated last year
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆32Updated last month
- Main development repository for SpreadGL☆14Updated 3 months ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 6 years ago
- An `R` package for various phylogenetic and evolutionary biology data manipulations☆12Updated 6 years ago
- Evaluating Nanopore-based bacterial variant calling☆15Updated last month
- strain-level analysis tools☆33Updated 2 months ago
- Plasmid analysis using rearrangement distances☆31Updated 2 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated last month
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆28Updated 6 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆48Updated 6 months ago
- Read contamination removal☆24Updated 11 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆41Updated last month
- TAXnomic Profile Aggregation and STAndardisation☆34Updated 2 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 6 months ago
- PoSeiDon: positive selection detection and recombination analysis pipeline☆35Updated 2 months ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Calculate assocations between genes and traits☆20Updated 2 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆19Updated 3 months ago
- software to identify primers that can distinguish genomes☆20Updated 2 months ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆24Updated 3 months ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆28Updated 6 years ago
- Recombination-free trees☆56Updated last year
- A pipeline for bioinformatics analysis of bacterial genomes☆19Updated 6 months ago
- Colinear block visualisation tool☆30Updated last year