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:
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 4 months ago
- Bacterial GWAS analysis☆43Updated last month
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆24Updated last year
- BEAV: Bacterial Element Annotation reVamped☆68Updated last week
- Calculate assocations between genes and traits☆25Updated 5 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆38Updated 2 months ago
- frame-shift correction for long-read (meta)genomics☆34Updated last year
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated this week
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆49Updated last month
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆60Updated 2 months ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Microbial agile accurate SNP Typer☆30Updated last year
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆30Updated 10 months ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆61Updated last year
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆62Updated last week
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆22Updated last year
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- A script for comparing old vs new versions of genome annotations☆21Updated 2 years ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆12Updated last year
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆24Updated 3 weeks ago
- Recombination-free trees☆59Updated 5 months ago
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19Updated last year
- MAGScoT - a MAG scoring and refinement tool☆36Updated 10 months ago