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:
- Influenza genome analysis Nextflow workflow☆22Updated 2 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 11 months ago
- Spaghetti: in situ analysis of 16S rRNA amplicons obtained by nanopore sequencing☆18Updated 10 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Predict plasmids from uncorrected long read data☆39Updated 5 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Extract metadata from biosamples in NCBI☆14Updated 4 years ago
- Gene-flank analysis tool☆27Updated 5 months ago
- Bacterial GWAS analysis☆40Updated last week
- Calculate assocations between genes and traits☆23Updated 2 months ago
- MAG Circularization Method☆33Updated 3 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆22Updated 2 years ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆25Updated this week
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- Ley Lab MetaGenome Profiler DataBase generator☆50Updated 2 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆24Updated 3 months ago
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆15Updated last month
- Metagenomics-related extended functionalities to samtools☆21Updated last year
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆36Updated 6 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆29Updated 3 weeks ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆29Updated 4 months ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆38Updated last month
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Intra-species bacterial contamination detection☆25Updated 3 months ago
- Metagenomic Analysis in Real Time☆24Updated last week
- Microbial agile accurate SNP Typer☆29Updated last year
- whole genome MLST analysis☆43Updated 2 months ago
- Gene Absence Presence Identification tool.☆26Updated 2 months ago
- Discover and annotate the virome☆42Updated last month