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autoref

A snakemake workflow for downloading reference data from, e.g. aws-igenomes

calfreeslots

A small command line utility for printing free calendar slots in the coming days

chm-synthetic-tumor-normal

Creating a synthetic tumor/normal sample pair from CHM1/CHM13 haploid cell lines.

conda-inject

Helper functions for injecting a conda environment into the current python environment (by modifying sys.path, without actually changing the current python environment)

data-science-for-bioinfo

A collection of resources for data scientists (not only) in bioinformatics

dna-seq-gatk-variant-calling

This Snakemake pipeline implements the GATK best-practices workflow

feature-extraction-from-random-forest

A repo to extract imporant features and its associated features from a random forest

fgbio

Tools for working with genomic and high throughput sequencing data.

fp-rust-wavelet-trees

fp-snakemake-2018

Fachprojekt Reproduzierbare Datenanalyse mit Snakemake am Beispiel der Bioinformatik

genomes

web-based genome viewer

go_term_p_value_aggregation

Code to aggregate sleuth differential expression p-values of individual transcripts to GO terms. (WIP!)

hla-simulation-evaluation

koesterlab-workstation-ansible

koesterlab.github.io

locosopa

A github action for creating software homepages with low code.

microphaser

nanopore-qc

A quality control pipeline for Oxford Nanopore sequencing

ngs-fastq-to-cram

Snakemake workflow for converting FASTQ files to self-contained CRAM files with maximum lossless compression.

ngs-test-data

A workflow for creating small NGS test data sets, useful for continuous integration.

praxisprojekt-rust-ws-2023-2024

rna-seq-kallisto-sleuth

setup-slurm-action

A github action to setup a small SLURM cluster for testing purposes.

single-cell-rna-seq

A single cell RNA-seq workflow following http://dx.doi.org/10.12688/f1000research.9501.2

snakemake-gitpod-template

A gitpod template for developing a Snakemake workflow

sv-benchmark

A GIAB based benchmark for SV calls.

texp

voyager

Visualization Tool for Data Exploration