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

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

SNP calling pipeline using mccortex

🃏 creating a cool magic trick with de Bruijn arbitrary sequences

Assemble genomes with de Bruijn graph

Coding problems from course 2 of the Bioinformatics specialization

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

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…

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

Programas usados em BioInformática

PoC - De Bruijn graph with PGMIndex

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

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

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.

Microassembly based somatic variant caller for NGS data

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

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

🛠️🧬De Bruijn graph-based genome assembler📈📊

Compacted and colored de Bruijn graph construction and querying