Berlin Institute of Health

vcfpy

Python 3 library with good support for both reading and writing VCF

scelvis

:sparkler: SCelVis - web-based visualization of single-cell data. :arrow_right: :arrow_right: Demo :arrow_right::arrow_right:

digestiflow-server

:cocktail: Web-based database system for flow cell management (incl. REST API)

bih-cluster

BIH Cluster Wiki

sodar-server

SODAR: System for Omics Data Access and Retrieval

snappy-pipeline

SNAPPY Nucleic Acid Processing in Python

sodar-core

SODAR Core: A Django-based framework for building scientific data management web apps

clinvar-tsv

Pipeline for converting ClinVar XML files to easy-to-use TSV files

altamisa

AltamISA: a Python API for ISA-Tab files

cubi-tk

CUBI Tooling for SODAR, VarFish et al.

reev

REEV: Explanation and Evaluation of Variants

biomedsheets

:books: JSON/TSV sample sheets for biomedical experiments

cubi-isa-templates

CUBI ISA-Tab templates

excovis

Exome Coverage Visualization

ngs-chew

Tasty, tasty, NGS!

RCrashCourse2023

sodar-docker-compose

Setup SODAR using Docker Compose

ood-bih-rstudio-server

Open OnDemand App: RStudio Server

panelapp-pydantic

Pydanic models for GenomicsEngland PanelApp API

Wei_et_al_2024

autopvs1

An automatic tool for the classification of PVS1 variants.

hpc-access

Web interface for managing access and resource requests for the BIH cluster

cubi-literature

CUBI publications

dotty

cdot-based transcript projections

drf-keyed-list

fork of drf-keyed-list maintained by @bihealth

kolla-ansible

Ansible deployment of the Kolla containers. Mirror of code maintained at opendev.org.

manuscript-Microenvironmental-acidification

ood-bih-jupyter

Open OnDemand App: Jupyter

reev-docker-compose

REEV Docker Compose

reev-frontend-lib

Re-useable components from REEV