kullrich / snpless-nfLinks
snpless-nf - A Nextflow pipeline for time-course analysis with bacterial NGS whole-genome data.
☆14Updated last year
Alternatives and similar repositories for snpless-nf
Users that are interested in snpless-nf are comparing it to the libraries listed below
Sorting:
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆18Updated last year
- Bacterial GWAS analysis☆46Updated last week
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 9 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- Calculate assocations between genes and traits☆29Updated 10 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Interpretative standards for AMR genotypes☆26Updated last week
- Predict plasmids from uncorrected long read data☆41Updated 2 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆32Updated last month
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19Updated last year
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated 4 months ago
- frame-shift correction for long-read (meta)genomics☆33Updated 2 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated 2 months ago
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆25Updated 5 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆26Updated last year
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Updated 3 months ago
- Metagenomic Analysis in Real Time☆29Updated 2 months ago
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆39Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆24Updated 6 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 7 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆24Updated 2 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆33Updated last year
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆71Updated 3 weeks ago
- Recombination-free trees☆63Updated 4 months ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆62Updated 2 years ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆13Updated last year
- Automated strain separation of low-complexity metagenomes☆52Updated 4 years ago
- Phylogeny Enhanded Prediction of PAN-genome