Pinned Repositories
Alpaca
Alpaca is a stand-alone method for identifying mosaic events in microbial genomes.
atk
Abeel Toolkit is set of utility classes that are used in our other projects.
genometools
GenomeTools is a collection of algorithms to manipulate genomics related file format. The primary purpose is to convert file formats from one to another.
hat
Haplotype Assembly Tool
integrated_bioinformatics
javaml
Java Machine Learning Library
nanopore-cenpk113-7d
Supplementary data for our CENPK113-7D assembly paper
ptolemy
quanttb
QuantTB is a SNP based method to identify and quantify individual strains present in tuberculosis whole genome sequencing datasets.
SHIP
AbeelLab's Repositories
AbeelLab/javaml
Java Machine Learning Library
AbeelLab/ptolemy
AbeelLab/hat
Haplotype Assembly Tool
AbeelLab/quanttb
QuantTB is a SNP based method to identify and quantify individual strains present in tuberculosis whole genome sequencing datasets.
AbeelLab/SHIP
AbeelLab/genometools
GenomeTools is a collection of algorithms to manipulate genomics related file format. The primary purpose is to convert file formats from one to another.
AbeelLab/integrated_bioinformatics
AbeelLab/safpred
Synteny-aware gene function prediction for bacteria using protein embeddings
AbeelLab/Alpaca
Alpaca is a stand-alone method for identifying mosaic events in microbial genomes.
AbeelLab/simulated-dbtl
AbeelLab/cs4255
Course material for the Algorithms for sequence-based bioinformatics course (CS4255) at TU Delft
AbeelLab/atk
Abeel Toolkit is set of utility classes that are used in our other projects.
AbeelLab/ctag
Graph genome browser
AbeelLab/jaxkineticmodel
Building, simulating, and training systems biology models using JAX/Diffrax
AbeelLab/long-read-assembly-benchmark
AbeelLab/peacock
peacock is a visualization library for generating vector graphics from (very) large phylogenies and many types of meta-data
AbeelLab/RP2023_kirbeyi
Research Project 2023-2024 Q2 - Kirbeyi
AbeelLab/abaumannii-pangenome
AbeelLab/GraphClean
Assembly graph cleaning through machine learning improves de novo long-read assembly
AbeelLab/vlpb-assembly-workshop
AbeelLab/abeellab.github.io
AbeelLab/graphlift
AbeelLab/multi_meta_omics
Reprodubility scripts for an ML pipeline for meta-omics data prediction
AbeelLab/parrot
Universal genotyping for Mycobacterium tuberculosis strains from WGS
AbeelLab/poultry_cecum_response
AbeelLab/redwood2
AbeelLab/RP2023_Alwani
Contains the PPCA, VAE and CVAE model used for the research project. Aside from this there are separate folders for research documents and the dataset related to the project.
AbeelLab/RP2023_Jarosz
AbeelLab/SAFPredDB
Bacterial synteny database
AbeelLab/tudelft-report-thesis-template
A LaTeX report/thesis template that aims to simplify and improve the (Xe)LaTeX template provided by the TU Delft. Ready-to-go with its rewritten class file and redesigned cover page.