ukhsa-collaboration / PHEnix
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
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- Merge transcriptome assemblies☆30Updated 8 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆37Updated 5 years ago
- Select primer sets for selective whole genome amplification (SWGA)☆32Updated 6 years ago
- Using kallisto for metagenomic analysis☆50Updated 8 years ago
- A method of assessing sequence complexity based on kmer frequencies☆31Updated 6 years ago
- Rank-based Gene Ontology analysis of gene expression data☆41Updated 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 2 years ago
- A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt☆30Updated 4 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- ☆23Updated 6 years ago
- Various scripts and recipes for working with nanopore data☆34Updated 8 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 6 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…☆58Updated last year
- ☆36Updated 2 years ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆74Updated 8 years ago
- de novo virus assembler of Illumina paired reads☆55Updated 3 years ago
- reference-based long read assemblies of bacterial genomes☆47Updated 3 years ago
- Adapter trimming and virtual library creation for Illumina Nextera Mate Pair libraries.☆54Updated 6 years ago
- Analysis tool for Nanopore sequencing data☆33Updated 5 years ago
- Conditional Reciprocal Best Blast☆42Updated 8 years ago
- ☆17Updated 6 years ago
- catalog for long-read sequencing tools☆32Updated 2 years ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- Toolkit for preparing genomes for submission to NCBI☆29Updated 3 years ago
- De novo Extraction of Strains from MetAgeNomes☆68Updated 4 years ago
- Error correction for Oxford Nanopore data☆47Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated last year
- Flexible circular visualization of genome-associated data with BioPerl and SVG.☆47Updated 5 years ago