Patrick Hüther's repositories
nextflowspawner
Spawn Nextflow pipelines from Jupyterhub and configure them interactively
nextflow
A DSL for data-driven computational pipelines
slurmformspawner
JupyterHub SlurmSpawner with a dynamic spawn form
configs
Config files used to define parameters specific to compute environments at different Institutions.
modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
Bismark
A tool to map bisulfite converted sequence reads and determine cytosine methylation states
MARVEL
The MARVEL assembler
reticulate
R Interface to Python
pangenome
Renders a collection of sequences into a pangenome graph.
MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
noodles
Bioinformatics I/O libraries in Rust
TRG-ImageProcessing
Swarts Lab CNN stuff
staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
slurm-utils
A few utilities for use on a SLURM cluster
GWAS-nf
Nextflow pipeline to run genome wide association studies using limix
bioconda-recipes
Conda recipes for the bioconda channel.
test-datasets
Test data to be used for automated testing with the nf-core pipelines
methylseq
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
tools
Python package with helper tools for the nf-core community.
singularity-jupyterlab-minimal
minimall Jupyterlab environment for CLIP, conda based
mamba
The Fast Cross-Platform Package Manager
scikit-image-feedstock
A conda-smithy repository for scikit-image.
rna_seq_kallisto1
nextflow pipeline for single read rna-seq
gwaR
A collection of R functions to conduct GWAS analysis (in arabidopsis gwaRabidopsis)
oeawai
Material of the ÖAW AI Summer School
hlatyping
Precision HLA typing from next-generation sequencing data