bioinformatics

Common Workflow Language - computational workflows @ UNLOCK

A bioinformatic pipeline for identifying giant viruses and Preplasmiviricota viruses in metagenomic data.

Proteinortho is a tool to detect orthologous genes within different species. (Download)

DAPCy is a Python implementation of the Discriminant Analysis of Principal Components (DAPC) method for population genetics.

https://uhasselt-bioinfo.gitlab.io/dapcy/

A Biopython based package that constructs and represent all nucleic acids in a PDB structure, with a special focus on base-pair representation.

A test GitHub repository for a set of client/server python scripts (as part of the Scientific Programming class).

Automated drug repurposing workflow for rare diseases – using Flask, Monarch API, DGIdb API and XGboost.

SonicParanoid is a stand-alone software tool for the identification of orthologous relationships among multiple species.

For details go to the wiki-page

SeqExtract searches annotated genomes for keywords and extract corresponding fasta records

AmpCheck investigates primer/probe - template matching and return amplicon related information.

https://dnarna.gitlab.io/ampcheck

A plugin for Qiime2 to trim oligonucleotides and reverse-complement reads

Single Nucleotide Allele Counting

RepeatGrower identify repeating k-mers in a genome and grows them until their occurrences decline.

A tree-based orthology inference program with additional functionality for reducing contamination.

Environment-dependent evolution of digital organisms simulator.

Plynk is a Python wraper for the PLINK software plus some convenience tools to enable a seamless workflow of Plink in Python.

practice tasks for "Algorithms for Sequence Analysis"