pirovc / grimerLinks
GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and metadata with focus on contamination detection.
☆23Updated 2 years ago
Alternatives and similar repositories for grimer
Users that are interested in grimer are comparing it to the libraries listed below
Sorting:
- Microbial agile accurate SNP Typer☆30Updated last year
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated last week
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆24Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆27Updated last month
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆53Updated 4 months ago
- A taxonomic classifier of plasmids☆27Updated 4 years ago
- ☆24Updated 6 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆49Updated last month
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated 2 weeks ago
- StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…☆13Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆36Updated 4 months ago
- Genome size estimation from long read overlaps☆59Updated last week
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆12Updated last year
- Bacterial GWAS analysis☆43Updated last month
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆40Updated 11 months ago
- ☆14Updated 4 years ago
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆33Updated last year
- MetagenOmic read Re-Assigner and abundance quantifier☆19Updated 6 months ago
- MAGScoT - a MAG scoring and refinement tool☆35Updated 10 months ago
- Neptune: Genomic Signature Discovery☆20Updated 9 months ago
- software to identify primers that can distinguish genomes☆21Updated 7 months ago
- Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification☆12Updated last year
- frame-shift correction for long-read (meta)genomics☆34Updated last year
- Organism-specific interpretation of AMR genotypes☆14Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated last month
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- strain-level analysis tools☆39Updated 10 months ago