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Screen a bacterial assembly (contigs/CDS or proteins) for nucleotide or protein sequences. Pipeline that screens for presence of genes of interest (GOI) in bacterial assemblies. Generates multiple CSVs and plots that describe which genes are present and how variable their sequence is. Can use DNA or protein query sequences (GOIs) and DNA contigs/fastas or protein fastas as database (db) to search in.

WGA-LP is a pipeline for whole genome assembly that simplifies the usage of different tools and helps the user in evaluating his results.

SearcHPV detects HPV fusion sites on both human genome and HPV genome. SearcHPV is able to provide locally assembled contigs for each integration events. It will report at least one and at most two contigs for each integration sites. The two contigs will provide information captured for left and right sides of the event. SearcHPV is a novel approach to identify and assemble human papillomavirus-host genomic integration events in cancer.

BubbleGun is a tool for detecting Bubbles and Superbubble in De-bruijn graphs. BubbleGun outputs runs of bubbles and superbubbles we call bubble chains.

Design and assembly of DNA molecules using multi-objective optimisation | A DNA design and assembly method based on multi-objective optimization | MOODA: Multi-Objective Optimization for DNA sequence Design and Assembly | A manufacturing-aware sequence optimizer | Write a MOODA configuration file. A .yaml file defining operators, objective functions, assemblies strategy and their parameters, this is how a MOODA configuration file looks like: