CFSAN-Biostatistics / bettercallsalLinks
Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.
☆12Updated this week
Alternatives and similar repositories for bettercallsal
Users that are interested in bettercallsal are comparing it to the libraries listed below
Sorting:
- CFSAN Shigella Typing Pipeline☆15Updated 2 years ago
- Organism-specific interpretation of AMR genotypes☆15Updated last year
- rapid serotyping of Vibrio parahaemolyticus from whole genome sequencing data using serogroup-specific genes☆10Updated 4 years ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 5 months ago
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆12Updated 2 years ago
- ☆24Updated last week
- ☆10Updated 8 months ago
- tool to determine optimal refrerence genome given a set of fasta files☆15Updated 2 years ago
- In silico taxonomic classification of Bacillus cereus group genomes using whole-genome sequencing data☆22Updated last year
- QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run☆12Updated last year
- Finding regions of similarity between plasmids☆16Updated 3 years ago
- UPHL's Reference Free Pipeline☆27Updated last month
- Predict MLST directly from uncorrected long reads☆27Updated last month
- ☆14Updated 4 years ago
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Updated 3 years ago
- NCBI Pathogen Detection Portal toolkit☆11Updated 2 years ago
- software to identify primers that can distinguish genomes☆20Updated last week
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆26Updated last year
- A tool to detect acquired AMR genes directly from long read sequencing data.☆18Updated 4 months ago
- Intra-species bacterial contamination detection☆25Updated 10 months ago
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆12Updated last year
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- Colinear block visualisation tool☆31Updated last year
- µbinfie blog☆18Updated 5 months ago
- Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification☆12Updated last year
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆13Updated last year
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆24Updated 2 years ago
- Visualize microbial evolution at the SNP level!☆15Updated 4 months ago
- Plasmid and antimicrobial resistance pipeline☆16Updated 11 months ago