This companion repository records, in a reproducible manner, all of the steps taken when assessing the performance of the method presented in Corrochano-Fraile et al. 2023.

LAVA (LAMP Assay Versatile Analysis) is an extendable open-source Loop-mediated isothermal AMPlification (LAMP)

Jupyter Notebook demonstrating a basic transcriptomic analysis

Tn-seq pipeline for Vibrio sp.

Convert Irish/British Grid Reference points to WGS84

Analyse RAD-tags and generate the Genetic Map with GWAS

Chromosome mapper for pedigree

Pedigree Chromosome Drawer

SVG Genetic Map Drawer

Introductory Bioinformatic Course to Sequencing Data Processing

Pipeline to develop one-step real-time RT-LAMP assays for specific detection of virus

Busco in a Docker

User-friendly computer program for microsatellite selection and primer design revisited - Now in a Docker

Scripts and tools used to develop one-step real-time RT-LAMP assays for specific detection of dengue virus.

Various RAD-seq related scripts

Stacks is a software pipeline for building loci from short-read sequences - Now in a Docker

Scripts and tools used to analyse mitochondrial sequence variations between to strain of sea-lice (Lepeophtheirus salmonis)

Collect Virus genomes from "NCBI assembly" database (internal)

A bacterial genomes finishing tool for structural insights on draft genomes - Now in a Docker

Olfactory Receptor family Assigner (bioperl module)

RATT: Rapid Annotation Transfer Tool (Wellcome Trust Sanger Institute)

A workflow-based platform for improved Universal Primer design

Irish Grid Mapping System

Shell script to Create a Certificate Authority and Certificates with OpenSSL