ELIXIR Ireland provides services and resources for the Irish life science research community
Explore our suite of services organized by category. Click on each category to view available services and resources provided by ELIXIR Ireland to support computational biology research across the country.
Ireland's national centre for high-performance computing (HPC) provides computational infrastructure for large-scale bioinformatics analyses, genomic data processing, and computational modeling. ICHEC offers access to advanced HPC systems, expert support, and training for researchers across life sciences and other disciplines.
Visit ICHECSource code (C++). Software to randomly sample subsets of sequences from a multiple sequence alignment using the jackknife procedure.
Visit AliJackSource code (C++). Software for quantifying the completeness of multiple sequence alignments used in phylogenetic and phylogenomic research.
Visit AliStatA tool that automates the development of ML models for predicting peptide bioactivity, facilitating robust evaluation and reproducibility.
Visit autopeptideMLSource code (Python) to identify protein complexes co-regulated in tumour proteomic samples.
Visit BRCA-CoreAn R package that incorporates most state-of-the-art deconvolution methods into an intuitive and extendible framework, providing a single entry point to explore, assess and disentangle gene expression data from heterogeneous samples.
Visit CellMixSource code (C++). Software to compute jackknife scores from trees generated from alignments generated using AliJack.
Visit CheckJackMultiple Sequence Alignment package via on-line server, in collaboration with groups in Germany, the UK and France.
Visit Clustal OmegaR/Bioconductor package that assists in demultiplexing scRNAseq data using both cell hashing and SNPs data.
Visit demuxSNPSource code (C++). Software for identifying optimal models of sequence evolution, which uses mixture models of nucleotide sequence evolution that account for rate heterogeneity across sites and across lineages.
Visit HAL-HASSource code (C++). Software to simulate the evolution of nucleotide sequences on phylogenetic trees under heterogeneous Markovian conditions.
Visit Hetero2Source code (C++). A program for analysing compositional heterogeneity across aligned sequences of nucleotides, genotypes, di-nucleotides, codons or amino acids.
Visit HomoR/Bioconductor package for iterative binary bi-clustering that extracts groups of phenotypes from multiple studies that are associated with similar gene sets.
Visit iBBiGA Java tool for profiling short-read sequences from T cell receptors and immunoglobulins. LymAnalyzer provides specialized analysis capabilities for immunogenomics research and adaptive immune repertoire studies.
Visit LymAnalyzerSource code (C++). Software for model selection during phylogenetic analysis of nucleotide and amino acid sequences.
Visit ModelFinderScripts intended to facilitate the calculation of the LOCO PGS and its inclusion as a fixed effect in a Linear Mixed Model (LMM) implemented with fastGWA.
Visit PGS-LMMSource code (C++). A program designed to estimate the degree of saturation observed between two sequences of nucleotides, genotypes, di-nucleotides, codons or amino acids.
Visit SatuRationR/Bioconductor package providing multimodal single-cell RNA-seq datasets for benchmarking and method development.
Visit SingleCellMultiModalPrediction of function and 2D structures for proteins, protein motifs and peptides.
Visit SLiMsA computational environment for the analysis and visualisation of public and user-generated ribosome profiling data mapped to transcriptomes.
Visit Trips-viz
Coming Soon
ELIXIR Ireland is developing interoperability services including standards, protocols,
and APIs to enable seamless data exchange and integration across bioinformatics platforms
and research infrastructures.
Access comprehensive training materials, courses, and workshops in bioinformatics and
computational biology through ELIXIR's Training eSupport System (TeSS). TeSS provides
a centralized platform for discovering and accessing training resources across the ELIXIR network.
Note: ELIXIR Ireland training collection coming soon.
A genome browser for the visualisation of public ribosome profiling data aligned to genomes.
Visit GWIPS-vizA metadata repository of publicly available ribosome profiling datasets, facilitating data-driven discoveries in the field of translation regulation.
Visit RiboSeq Data PortalA comprehensive database and genome browser for ribosome profiling (ribo-seq) data. Developed at UCC, this resource provides access to ribosome profiling datasets, translation visualization tools, and integrated analysis of translation across multiple organisms. Essential for researchers studying protein synthesis, translation regulation, and gene expression.
Visit RiboSeq.orgA computational environment for the analysis and visualisation of public and user-generated ribosome profiling data mapped to transcriptomes.
Visit Trips-viz