Joris van Steenbrugge's repositories
advanced-shiny
Shiny tips & tricks for improving your apps and solving common problems
alphafill
AlphaFill is an algorithm based on sequence and structure similarity that “transplants” missing compounds to the AlphaFold models. By adding the molecular context to the protein structures, the models can be more easily appreciated in terms of function and structure integrity.
Assign-Taxonomy-with-BLAST
Assign taxonomy with blast, can be used for qiime
Augustus
Genome annotation with AUGUSTUS
bcbb
Incubator for useful bioinformatics code, primarily in Python and R
createpanelrefs
Generate Panel of Normals, models or other similar references from lots of samples
dammit
just annotate it, dammit!
docker-apollo
:whale: Apollo 2.X Docker Image
FunnerGuild
Custom funguild implementation
kentUtils
UCSC command line bioinformatic utilities
metagMisc
Miscellaneous functions for metagenomic analysis.
microbial
Do microbiome analysis with dada2 and phyloseq object
modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
personal_configs
personal configuration files
pita
Pipeline to improve transcript annotation based on RNA-seq and ChIP-seq data.
protein-sequence-embedding-iclr2019
Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019