Software
Here you can find a collection of software tools and web portals developed in the Bioinformatics Group.
Software tools
- Geometricus: a structure-based, alignment-free embedding approach for proteins [paper]
- Paired omics Data Platform: resource for linked public genomics and metabolomics data
- Caretta: A multiple protein structure alignment and feature extraction suite [demo-server]
- AraQTL: Arabidopsis workbench and database for QTL analysis [paper]
- WormQTL2: Interactive platform for systems genetics in Caenorhabditis elegans [paper]
- OptiTools: A toolset for optical map detection (OptiScan), alignment (OptiMap), and assembly (OptiAsm)
- Ouroboros: prediction of protein-protein interactions to improve intermolecuar contact prediction [paper]
- PanTools: representation, storage, and exploration of pan-genomic data [paper]
- ACE: error correction in NGS reads using K-mer tries [paper]
- antiSMASH: identification of biosynthetic gene clusters [paper]
- Primer3Plus: primer design software [paper]
- QualitySNPng: SNP detection & visualization [paper]
- HSPVdb: Human Short Peptide Variation Database [paper]
- ProRepeat: Amino acid tandem repeats in proteins [paper]
- CyLineUp: Human Short Peptide Variation Database [paper]
- Haplosim: Haplotyping simulation pipeline
- plantiSMASH: identification of plant biosynthetic gene clusters [paper]
- TriPoly: Haplotype estimation tool for polyploids [paper]
- PopPoly: Family-based estimation of polyploid haplotypes
- PKSpop: Prediction of PKS protein-protein interactions
Databases and Web portals
- Paired omics Data Platform: resource for linked public genomics and metabolomics data
- Sesquiterpene synthase database: resource for characterized plant sesquiterpene synthases [paper]
- Winter moth: web portal for the winter moth genome [paper]