Pinned Repositories
Advanced_Bioinformatics_StarterCode
Repo for teaching purposes in the Advanced Bioinformatics course, UMC Utrecht, 2016
AMRdetection
Project to learn some Rust and do on the fly AMR detection
analysis-workflows
Open workflow definitions for genomic analysis from MGI at WUSM.
beth-thesis
binding-site-predictor
Neural model to predict DNA binding sites of proteins
bioinformatics
Tools for bioinformatics
Carpentries
Snippets relating the carpentries curriculum
Pangenome-Graphs-Workshop
This repository contains material to construct pangenome graphs for a small bacteria dataset detailing every step in the Nesi environment.
PanGenomeGraph_microbe_paper
Paper writing for a first practical implementation of pangenome graph (pggb) for microbial genomics
tools
jdeligt's Repositories
jdeligt/Advanced_Bioinformatics_StarterCode
Repo for teaching purposes in the Advanced Bioinformatics course, UMC Utrecht, 2016
jdeligt/PanGenomeGraph_microbe_paper
Paper writing for a first practical implementation of pangenome graph (pggb) for microbial genomics
jdeligt/Carpentries
Snippets relating the carpentries curriculum
jdeligt/Pangenome-Graphs-Workshop
This repository contains material to construct pangenome graphs for a small bacteria dataset detailing every step in the Nesi environment.
jdeligt/tools
jdeligt/AMRdetection
Project to learn some Rust and do on the fly AMR detection
jdeligt/analysis-workflows
Open workflow definitions for genomic analysis from MGI at WUSM.
jdeligt/beth-thesis
jdeligt/binding-site-predictor
Neural model to predict DNA binding sites of proteins
jdeligt/chloroExtractor
jdeligt/D3
D3 related documents and code
jdeligt/Deepbinner
a signal-level demultiplexer for Oxford Nanopore reads
jdeligt/diagnostics_exome_reporting
Pipeline to filter whole exome vcf files and generate a report document for clinical diagnostics.
jdeligt/FAIR_genomics_models
Semantic models generated during a BYOD for CancerGenomics.nl
jdeligt/frontline_genomics_presentation
Our presentation on 'real-time' genomics for ESR Data Science Week 2020.
jdeligt/guix-additions
jdeligt/human_genomics_pipeline
A simple Snakemake workflow to process paired-end sequencing data (WGS) using bwa/GATK4.
jdeligt/IAP
Illumina variant calling pipeline
jdeligt/Intro_Python
Description introduction to python
jdeligt/jdeligt.github.io
Presentations, home page, blog & useful code snippets
jdeligt/licenses
Licenses approved by Team Digitale, ready to use in your repository
jdeligt/minimal-pathogen-agnostic-contextual-data-specification
An international minimal metadata standard for public health and One Health genomic surveillance.
jdeligt/ncov
Nextstrain build for novel coronavirus (nCoV)
jdeligt/python-novice-inflammation
Software Carpentry introduction to Python for novices using inflammation data.
jdeligt/snippy
:scissors: :zap: Rapid haploid variant calling and core genome alignment
jdeligt/sparqling-genomics
Ontologies, RDF-generators, and a web interface for querying it all.
jdeligt/Strain-specific-unmapped-reads
Scripts and pipelines for the analysis of strain-specific unmapped reads in 31 rat-strains
jdeligt/tb
TB runs with nextstrain-augur
jdeligt/Test-Carpentry-Python-2019
Workshop webpage
jdeligt/WNT_paper
Scripts for WNT target paper