jonas-fuchs / SARS-CoV-2-analysesLinks
Collection of R scripts for SARS-CoV-2 (variant) analyses
☆12Updated 2 years ago
Alternatives and similar repositories for SARS-CoV-2-analyses
Users that are interested in SARS-CoV-2-analyses are comparing it to the libraries listed below
Sorting:
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Spaghetti: in situ analysis of 16S rRNA amplicons obtained by nanopore sequencing☆18Updated last year
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 2 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 3 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Extract metadata from biosamples in NCBI☆16Updated 4 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Metagenomic Analysis in Real Time☆28Updated 3 weeks ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆42Updated this week
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated last year
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- Bacterial GWAS analysis☆43Updated 2 months ago
- Resolving Species Level Classification Using Emu☆14Updated last year
- Gene-flank analysis tool☆30Updated 9 months ago
- Automated strain separation of low-complexity metagenomes☆50Updated 3 years ago
- A script for comparing old vs new versions of genome annotations☆22Updated 2 years ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆39Updated 2 weeks ago
- Influenza genome analysis Nextflow workflow☆23Updated 3 weeks ago
- Calculate assocations between genes and traits☆28Updated 6 months ago
- Ancient microbiome snakemake workflow☆26Updated 5 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆63Updated last week
- Discover and annotate the virome☆53Updated last week
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆41Updated last week
- Automatic eukaryotic taxonomic classification☆28Updated 5 months ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆39Updated 3 years ago
- strain-level analysis tools☆39Updated 11 months ago