ukhsa-collaboration / PHEnixLinks
Public Health England SNP calling pipeline.
☆36Updated 6 years ago
Alternatives and similar repositories for PHEnix
Users that are interested in PHEnix are comparing it to the libraries listed below
Sorting:
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 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
- Improve the quality of a denovo assembly by scaffolding and gap filling☆57Updated 4 years ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆74Updated 8 years ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- Merge transcriptome assemblies☆31Updated 8 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆37Updated 5 years ago
- de novo virus assembler of Illumina paired reads☆56Updated 4 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…☆59Updated 2 years ago
- ☆23Updated 6 years ago
- Hagfish - assess an assembly through creative use of coverage plots☆36Updated 12 years ago
- de.NBI Nanopore Training Course☆20Updated last week
- Various scripts and recipes for working with nanopore data☆34Updated 9 years ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Updated 3 years ago
- Using kallisto for metagenomic analysis☆50Updated 8 years ago
- Conditional Reciprocal Best Blast☆41Updated 8 years ago
- A toolkit for annotation of transposable element families from unassembled sequence reads☆30Updated 2 years ago
- NaS is a hybrid approach developped to take advantage of data generated using MinION device. We combine Illumina and Oxford Nanopore tech…☆15Updated 8 years ago
- A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt☆30Updated 4 years ago
- Toolkit for preparing genomes for submission to NCBI☆30Updated 3 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated 2 years ago
- Metagenomic profiling and phylogenetic distances via common kmers☆42Updated 3 years ago
- Horizontal Gene Transfer Detection by Mapping Sequencing Reads☆21Updated 7 years ago
- GO FEAT: a rapid web-based functional annotation tool for genomic and transcriptomic data☆17Updated last year
- A method of assessing sequence complexity based on kmer frequencies☆32Updated 7 years ago
- A program for the Maximum-likelihood analysis of population genomic data.☆28Updated 4 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- Tool for visualising assemblies.☆17Updated 9 years ago