Microassembly based somatic variant caller for NGS data

An efficient index for the colored, compacted, de Bruijn graph

Compacted and colored de Bruijn graph construction and querying

MindTheGap is a SV caller for short read sequencing data dedicated to insertion variants (all sizes and types). It can also be used as a local assembly tool.

Assembled Phi-X174 genome using Overlap Graph, Kmer Composition and De-Bruijn Graph.

This repository contains all the solutions of assignments, starter files and other materials related to this specialization.

K-mer counting with low memory consumption enables de novo assembly of 106x human sequence data in 2.7 hours

SNP calling pipeline using mccortex

🃏 creating a cool magic trick with de Bruijn arbitrary sequences

The phi X 174 bacteriophage is a single-stranded DNA virus that infects Escherichia coli (E. Coli), and the first DNA-based genome to be sequenced. This work was completed by Fred Sanger and his team in 1977. This repository contains simple assembler, different components of it and various error correction techniques for assembling Phi X 174 bac…

Assemble genomes with de Bruijn graph

A fork of the original https://github.com/medvedevgroup/UST tool.

Project for the course of Elementi di Bioinformatica AY 2017/2018

Programas usados em BioInformática

String re-construction using the concepts of de Bruijn graph and Eulerian path.

PoC - De Bruijn graph with PGMIndex

Shell script for extracting sequences from high-degree nodes in metagenomic assembly graphs

🛠️🧬De Bruijn graph-based genome assembler📈📊

Coding problems from course 2 of the Bioinformatics specialization