rvicedomini / strainberryLinks
Automated strain separation of low-complexity metagenomes
☆51Updated 3 years ago
Alternatives and similar repositories for strainberry
Users that are interested in strainberry are comparing it to the libraries listed below
Sorting:
- Strain-level haplotyping for metagenomes with short or long-reads.☆52Updated 3 months ago
- Recombination-free trees☆59Updated 4 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆46Updated last week
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆36Updated 3 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆60Updated last month
- Bacterial GWAS analysis☆43Updated 2 weeks ago
- A tool for removing redundant genomes from a set of assemblies☆73Updated last year
- Microbial agile accurate SNP Typer☆30Updated last year
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆37Updated 4 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- strain-level analysis tools☆39Updated 9 months ago
- viralFlye pipeline☆18Updated 11 months ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆24Updated 3 years ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆76Updated 2 weeks ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆48Updated 2 weeks ago
- Split Kmer Analysis☆65Updated 3 years ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 3 months ago
- Automatic eukaryotic taxonomic classification☆29Updated 3 months ago
- Genome size estimation from long read overlaps☆59Updated 2 weeks ago
- More scalable dereplication for metagenome assembled genomes☆63Updated last week
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆43Updated 2 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 2 weeks ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆61Updated last week
- Calculate assocations between genes and traits☆25Updated 4 months ago
- Colinear block visualisation tool☆31Updated last year
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- A toolkit for prokaryotic comparative genomics☆50Updated 6 months ago