OLC-Bioinformatics / ConFindrLinks
Intra-species bacterial contamination detection
☆25Updated 11 months ago
Alternatives and similar repositories for ConFindr
Users that are interested in ConFindr are comparing it to the libraries listed below
Sorting:
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Updated 4 years ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 5 months ago
- Recombination-free trees☆63Updated 4 months ago
- CFSAN Shigella Typing Pipeline☆15Updated 2 years ago
- Predict plasmids from uncorrected long read data☆41Updated 2 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 years ago
- Order and orientation of complete bacterial genomes☆29Updated 6 months ago
- Predict MLST directly from uncorrected long reads☆27Updated 2 months ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- frame-shift correction for long-read (meta)genomics☆33Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 8 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Updated 3 years ago
- Automated strain separation of low-complexity metagenomes☆52Updated 4 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 9 months ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆26Updated last year
- Colinear block visualisation tool☆31Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆19Updated 2 years ago
- viralFlye pipeline☆18Updated last year
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Get microbial sequence data easier and faster☆28Updated 6 years ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆60Updated this week
- In silico serotyping, finetyping and Bexsero antigen sequence typing of Neisseria meningitidis☆14Updated 11 months ago
- Calculate assocations between genes and traits☆29Updated 10 months ago