sgearle / bugwasLinks
Locus and lineage tests for bacterial GWAS
☆29Updated 7 years ago
Alternatives and similar repositories for bugwas
Users that are interested in bugwas are comparing it to the libraries listed below
Sorting:
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 3 years ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆60Updated 5 years ago
- Quantifying the significance of genetic variation using probabilistic profile-based methods.☆19Updated 4 years ago
- strain-level analysis tools☆38Updated 8 months ago
- Strain Resolution ON Graphs☆48Updated last year
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…☆33Updated last year
- ☆53Updated 4 years ago
- ☆31Updated last year
- Gene-flank analysis tool☆28Updated 6 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 3 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 4 months ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆59Updated 4 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- Haplotype-aware genome assembly toolkit☆29Updated 5 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated 2 years ago
- Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …☆46Updated 3 years ago
- MetaCompass: Reference-guided Assembly of Metagenomes☆39Updated 2 weeks ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated last year
- Annotated Genome Optimization Using Transcriptome Information☆20Updated 5 years ago
- Identify phenotype-specific k-mers and predict phenotype using sequenced bacterial strains☆19Updated 3 months ago
- Recombination-free trees☆58Updated 3 months ago
- Visualize whole genome alignments as linear maps☆73Updated 9 months ago