dib-lab / charcoalLinks
Remove contaminated contigs from genomes using k-mers and taxonomies.
☆59Updated 2 years ago
Alternatives and similar repositories for charcoal
Users that are interested in charcoal are comparing it to the libraries listed below
Sorting:
- Recombination-free trees☆64Updated 3 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 8 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Automated strain separation of low-complexity metagenomes☆53Updated 4 years ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆43Updated 8 months ago
- Get microbial sequence data easier and faster☆28Updated 6 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated last week
- Calculate assocations between genes and traits☆29Updated 9 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 4 months ago
- Automatic eukaryotic taxonomic classification☆29Updated 7 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Bacterial GWAS analysis☆46Updated 2 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 6 months ago
- MAG Circularization Method☆32Updated last month
- Gene-flank analysis tool☆34Updated last year
- alignment-free coverage calculation for metagenomic binning >100 times faster☆48Updated 9 months ago
- Intra-species bacterial contamination detection☆25Updated 10 months ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 years ago
- Split Kmer Analysis☆66Updated 3 years ago
- Plasmid analysis using rearrangement distances☆49Updated 3 months ago
- ☆24Updated 11 months ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆39Updated last year
- Discover and annotate the virome☆56Updated 2 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆26Updated last month
- Order and orientation of complete bacterial genomes☆29Updated 5 months ago
- Classify metagenomic contigs as eukaryotic or prokaryotic☆43Updated 2 years ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆48Updated last week
- Microbial agile accurate SNP Typer☆30Updated 2 years ago