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☆17Updated last year
- Bacterial GWAS analysis☆46Updated 3 weeks ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 6 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- Calculate assocations between genes and traits☆29Updated 8 months ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Automated strain separation of low-complexity metagenomes☆52Updated 4 years ago
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19Updated last year
- Assembly and scaffolding of haploid / unphased genomes from long ONT or PacBio HiFi reads☆30Updated 3 weeks ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆62Updated 2 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Phylogeny Enhanded Prediction of PAN-genome☆43Updated 5 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- A toolkit for prokaryotic comparative genomics☆51Updated last month
- Predict plasmids from uncorrected long read data☆41Updated 2 weeks ago
- Genomewide Epistasis Analysis on Bacteria☆15Updated 6 months ago
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆22Updated last year
- BEAV: Bacterial Element Annotation reVamped☆72Updated 2 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆31Updated last month
- frame-shift correction for long-read (meta)genomics☆33Updated last year
- A pipeline for bioinformatics analysis of bacterial genomes☆31Updated this week
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆42Updated 3 weeks ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆60Updated 3 weeks ago
- Interpretative standards for AMR genotypes☆25Updated last week
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated last month
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆56Updated 7 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 5 months ago