simonerampelli / viromescan
ViromeScan allows the user to explore and taxonomically characterize the virome from metagenomic reads, efficiently denoising samples from reads of other microorganisms.
☆12Updated last year
Alternatives and similar repositories for viromescan:
Users that are interested in viromescan are comparing it to the libraries listed below
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆12Updated 5 months ago
- Finding regions of similarity between plasmids☆16Updated 2 years ago
- A simple-to-use tool for visualizing and comparing genome contexts for numerous genomes☆15Updated 7 months ago
- software to identify primers that can distinguish genomes☆21Updated last week
- Plot genome alignment figure using progressiveMauve & genoPlotR☆21Updated 2 years ago
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆11Updated 7 months ago
- MetagenOmic read Re-Assigner and abundance quantifier☆18Updated this week
- Variant call verification☆15Updated 2 weeks ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 2 years ago
- Strain-level taxonomic classification of metagenomic data using pangenome graphs☆22Updated 2 months ago
- ☆13Updated 3 years ago
- detect temperate phage (active prophage) in assembled bacterial genome sequences☆14Updated 2 years ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Updated last month
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆22Updated last year
- ccfind - circular complete genome finder with clues of terminal redundancy☆15Updated 4 years ago
- NCBI-style taxdump files for International Committee on Taxonomy of Viruses (ICTV)☆20Updated 7 months ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 5 months ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆11Updated 10 months ago
- A Hierarchical Approach to Pangenomics Inference☆11Updated 9 months ago
- ☆11Updated 2 weeks ago
- tool to determine optimal refrerence genome given a set of fasta files☆14Updated last year
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆9Updated 3 years ago
- Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification☆11Updated 9 months ago
- Generate basic stats for an assembly.☆10Updated last year
- StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…☆13Updated 10 months ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆22Updated 9 months ago
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12Updated 8 months ago
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆25Updated last month
- This is graphanalyzer.py, a script designed to automatically interpret the outputs generated by vConTACT2 when using the INPHARED databas…☆18Updated last year