nf-core / viralmetagenomeLinks
A nf-core pipeline for untargeted whole genome reconstruction with iSNV detection from metagenomic samples.
☆29Updated this week
Alternatives and similar repositories for viralmetagenome
Users that are interested in viralmetagenome are comparing it to the libraries listed below
Sorting:
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆61Updated this week
- A toolkit for prokaryotic comparative genomics☆51Updated 3 months ago
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆38Updated 3 years ago
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆64Updated last year
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆39Updated 4 months ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆55Updated 6 months ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 3 years ago
- BEAV: Bacterial Element Annotation reVamped☆73Updated 5 months ago
- Microbial agile accurate SNP Typer☆30Updated 2 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆26Updated last year
- Discover and annotate the virome☆58Updated 3 months ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆39Updated last year
- alignment-free coverage calculation for metagenomic binning >100 times faster☆48Updated 10 months ago
- Assembly and scaffolding of haploid / unphased genomes from long ONT or PacBio HiFi reads☆30Updated 2 months ago
- ☆81Updated 2 months ago
- Automatic eukaryotic taxonomic classification☆29Updated 8 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Updated 3 months ago
- Scalable creating/updating of metagenome profiling databases☆63Updated 7 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- Classify metagenomic contigs as eukaryotic or prokaryotic☆43Updated 2 years ago
- ☆45Updated 2 years ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆71Updated 3 weeks ago
- Predict plasmids from uncorrected long read data☆41Updated 2 months ago
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆39Updated 2 years ago
- MAGScoT - a MAG scoring and refinement tool☆42Updated last year
- MAG Circularization Method☆32Updated 2 months ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- Bacterial GWAS analysis☆46Updated last week
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆71Updated last month
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆46Updated last week