tseemann / berokkaLinks
🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
☆26Updated 5 years ago
Alternatives and similar repositories for berokka
Users that are interested in berokka are comparing it to the libraries listed below
Sorting:
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆28Updated 4 months ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated 2 years ago
- Bacterial GWAS analysis☆42Updated this week
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last month
- Gene-flank analysis tool☆28Updated 6 months ago
- reference-based long read assemblies of bacterial genomes☆50Updated 3 years ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- Genome size estimation from long read overlaps☆58Updated last week
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆24Updated 11 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆36Updated 2 months ago
- Calculate assocations between genes and traits☆23Updated 4 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆52Updated 3 months ago
- Discover and annotate the virome☆44Updated last week
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Recombination-free trees☆58Updated 3 months ago
- Microbial agile accurate SNP Typer☆30Updated last year
- Resolving Species Level Classification Using Emu☆13Updated last year
- Fast and space-efficient taxonomic classification of long reads☆43Updated 2 months ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆24Updated 3 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 4 months ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Intra-species bacterial contamination detection☆25Updated 5 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆59Updated 2 weeks ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆45Updated this week
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 3 years ago