Berlin Institute of Health

vcfpy

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

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

reev

REEV: Explanation and Evaluation of Variants

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.

biomedsheets

:books: JSON/TSV sample sheets for biomedical experiments

cubi-isa-templates

CUBI ISA-Tab templates

ngs-chew

Tasty, tasty, NGS!

Wei_et_al_2024

auto-acmg

A tool for automatic classification of sequence variants according to ACMG criteria.

kiosc-server

ood-bih-rstudio-server

Open OnDemand App: RStudio Server

panelapp-pydantic

Pydanic models for GenomicsEngland PanelApp API

seasnap-pipeline

SeA-SnaP: (Se)q (A)nalysis (Sna)kemake (P)ipeline

hpc-access

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

cubi-literature

CUBI publications

dotty

cdot-based transcript projections

hpc-access-docker-compose

Docker compose for hpc-access

keycloak-theme-bihealth

manuscript-Microenvironmental-acidification

nf-core-configs

Config files used to define parameters specific to compute environments at different Institutions

ood-bih-jupyter

Open OnDemand App: Jupyter

ood-bih-matlab

Open OnDemand App: MATLAB

reev-docker-compose

REEV Docker Compose

reev-frontend-lib

Re-useable components from REEV

StemCNV-check