caitiecollins / treeWASLinks
treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes
☆103Updated 4 months ago
Alternatives and similar repositories for treeWAS
Users that are interested in treeWAS are comparing it to the libraries listed below
Sorting:
- DDBJ Fast Annotation and Submission Tool☆79Updated last month
- Making whole bacterial genome sequencing data analysis easy☆106Updated last month
- Massively parallel phylogenetic placement of genetic sequences☆84Updated 2 years ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆114Updated last year
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆66Updated last year
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆30Updated 5 years ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆115Updated 3 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆127Updated 3 weeks ago
- Nextflow pipeline to analyze PacBio HiFi full-length 16S data☆76Updated 3 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆88Updated 2 weeks ago
- A toolbox for comparative genomics.☆103Updated 4 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆57Updated last year
- Pairwise SNP distance matrix from a FASTA sequence alignment☆136Updated last year
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆121Updated last year
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆54Updated 3 years ago
- Synteny Imager☆62Updated 9 months ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- OPERA-MS - Hybrid Metagenomic Assembler☆95Updated 11 months ago
- Metatranscriptomics Tutorial☆62Updated last year
- ☆82Updated last year
- Assembly statistic visualisation☆90Updated last year
- A tool for generating consensus long-read assemblies for bacterial genomes☆137Updated this week
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 11 months ago
- A set of functions to visualise genotypes based on a VCF☆86Updated 3 years ago
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆95Updated last month
- ☆71Updated last year
- BSR-Based Allele Calling Algorithm☆145Updated last month
- A pipeline for running AMRfinderPlus and collating results into functional classes☆78Updated 9 months ago
- Reorients assembled microbial sequences☆120Updated 2 months ago
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆74Updated 2 months ago