Pinned Repositories
altamisa
AltamISA: a Python API for ISA-Tab files
bih-cluster
BIH Cluster Wiki
digestiflow-server
:cocktail: Web-based database system for flow cell management (incl. REST API)
hlama
Simple matching of HTS samples based on HLA typing
NeatMS
NeatMS is an open source python package for untargeted LCMS signal labelling and filtering.
scelvis
:sparkler: SCelVis - web-based visualization of single-cell data. :arrow_right: :arrow_right: Demo :arrow_right::arrow_right:
sodar-core
SODAR Core: A Django-based framework for building scientific data management web apps
sodar-core-legacy
LEGACY repository for SODAR Core, preserved for saving review-related issues. See "sodar-core" for the up-to-date repository.
sodar-server
SODAR: System for Omics Data Access and Retrieval
vcfpy
Python 3 library with good support for both reading and writing VCF
Berlin Institute of Health's Repositories
bihealth/sodar-core-legacy
LEGACY repository for SODAR Core, preserved for saving review-related issues. See "sodar-core" for the up-to-date repository.
bihealth/spliceai-wrapper
Wrapper for Illumina SpliceAI that caches results
bihealth/digestiflow-demux
:spaghetti: Digestiflow Demultiplexing Tool
bihealth/rodeos-ingest
Code for ingesting omics data into omics storage based on iRODS capabilities
bihealth/bamspiker
Spike variants into BAM files (without all the hassle)
bihealth/rodeos-docker-compose
Setup RODEOS ingest with docker compose
bihealth/action-require-trailers
GitHub Action to require commit message trailers
bihealth/atlatl
atlatl is a toolkit for targeted long read based genotyping and structural variation detection at candidate loci
bihealth/circ_circ
R scripts and supplementary files for the circ_circ Manuscript
bihealth/clear-cnv-supplementary
supplementary material for the publication of clearCNV
bihealth/cookiecutter-python-cubi
A cookiecutter with useful boilerplate
bihealth/davrods-docker
Davrods Docker image for use in BIH projects
bihealth/digestiflow-docker-compose
Setup Digestiflow Server using Docker Compose
bihealth/discourse-openid-connect
Allows an OpenID Connect provider to be used as an authentication provider for Discourse
bihealth/hoenzke_et_al_human_lungs_covid_ace2
bihealth/hoffmann_et_al_bronchioalveolar_organoids
bihealth/hpc-access-docker-compose
Docker compose for hpc-access
bihealth/idoit-py
(Limited) CLI for i-doit in Python3
bihealth/kayobe
Deployment of containerised OpenStack to bare metal using kolla and bifrost. Mirror of code maintained at opendev.org.
bihealth/maelstrom-core
Rust utilities for NGS data processing
bihealth/maelstrom-core-old
a pipeline for SV calling
bihealth/manuscript_venn_diagrams
Usage of Venn Diagrams in connection with gene set enrichment analysis – manuscript
bihealth/ood-bih-codeserver
Open OnDemand integration of VS Code Server
bihealth/rpms-ganglia
Fork of https://src.fedoraproject.org/rpms/ganglia
bihealth/singularity-example-opencl
Supporting code for using opencl with singularity
bihealth/singularity-r
R in a Singularity container
bihealth/singularity-rstudio
RStudio Server in a Singularity container
bihealth/slurm-tui
Slurm Text User Interface using REST API
bihealth/snappy-use-case-germline
SNAPPY use case "germline": from FASTQ to VarFish export
bihealth/sodar-taskflow
SODAR service for iRODS transactions