Kevin Ryan's Projects
Bayesian High-order Interaction Toolkit (BHIT) used a novel Bayesian computational method with a Markov Chain Monte Carlo (MCMC) search for detecting epistatic interactions among single nucleotide polymorphisms (SNPs).
A tutorial on how to create bioinformatics pipelines as bash scripts, Makefiles and using tools like Nextflow.
Clinical Whole Genome and Exome Sequencing Pipeline
A quick introduction to version control with Git and GitHub
Config files for my GitHub profile.
Some miscellaneous scripts
Repository to host tool-specific module files for the Nextflow DSL2 community!
NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.
nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
Code and files for the main nf-core website.
Master's project - identification of trans-eQTL clusters resulting from changes in transcription factor binding site preference.
RNA-seq analysis pipeline for detection gene-fusions
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
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test datasets for hlatyping
Assignment 6 for MA5114