Arcadia-Science / metagenomicsLinks
A Nextflow workflow for QC, evaluation, and profiling of metagenomic samples using short- and long-read technologies
☆37Updated 2 years ago
Alternatives and similar repositories for metagenomics
Users that are interested in metagenomics are comparing it to the libraries listed below
Sorting:
- Working with the outputs of sourmash in R☆27Updated 2 years ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆44Updated last month
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆55Updated 4 months ago
- A containerized bioinformatics pipeline for viral metagenomic data analysis☆37Updated last year
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆31Updated last year
- TAXnomic Profile Aggregation and STAndardisation☆41Updated 2 weeks ago
- hecatomb is a virome analysis pipeline for analysis of Illumina sequence data☆59Updated 2 months ago
- Discover and annotate the virome☆53Updated last month
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated 2 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- OPAL: Open-community Profiling Assessment tooL☆29Updated 10 months ago
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆39Updated last year
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆66Updated last year
- map Illumina metagenomes to genomes!☆38Updated this week
- Influenza genome analysis Nextflow workflow☆24Updated 2 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- BEAV: Bacterial Element Annotation reVamped☆72Updated 3 months ago
- Accurate metagenomi/metatranscriptomic analysis pipeline☆23Updated 4 years ago
- ☆26Updated 2 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Updated 8 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆42Updated last month
- Computational workflows for metagenomics tasks, by the Bhatt lab☆47Updated 2 years ago
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆44Updated 3 months ago
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆22Updated last year
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆35Updated 4 years ago
- Gene-flank analysis tool☆33Updated 11 months ago
- Strain Resolution ON Graphs☆48Updated 2 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago