Berlin Institute of Health

BIH Core Unit Bioinformatics & BIH HPC IT

Pinned Repositories

altamisa
AltamISA: a Python API for ISA-Tab files
Language:Python5 10 502
bih-cluster
BIH Cluster Wiki
Language:Awk13 6 3136
digestiflow-server
:cocktail: Web-based database system for flow cell management (incl. REST API)
Language:Python15 7 582
hlama
Simple matching of HTS samples based on HLA typing
Language:Python13 7 02
NeatMS
NeatMS is an open source python package for untargeted LCMS signal labelling and filtering.
Language:Python26 8 93
scelvis
:sparkler: SCelVis - web-based visualization of single-cell data. :arrow_right: :arrow_right: Demo :arrow_right::arrow_right:
Language:Python21 14 285
sodar-core
SODAR Core: A Django-based framework for building scientific data management web apps
Language:Python8 3 1.3k1
sodar-core-legacy
LEGACY repository for SODAR Core, preserved for saving review-related issues. See "sodar-core" for the up-to-date repository.
Language:Python15 8 74
sodar-server
SODAR: System for Omics Data Access and Retrieval
Language:Python13 3 1.9k3
vcfpy
Python 3 library with good support for both reading and writing VCF
Language:Python85 6 5118

Berlin Institute of Health's Repositories

bihealth/vcfpy
Python 3 library with good support for both reading and writing VCF
Language:Python85 6 5118
bihealth/scelvis
:sparkler: SCelVis - web-based visualization of single-cell data. :arrow_right: :arrow_right: Demo :arrow_right::arrow_right:
Language:Python21 14 285
bihealth/digestiflow-server
:cocktail: Web-based database system for flow cell management (incl. REST API)
Language:Python15 7 582
bihealth/bih-cluster
BIH Cluster Wiki
Language:Awk13 6 3136
bihealth/sodar-server
SODAR: System for Omics Data Access and Retrieval
Language:Python13 3 1.9k3
bihealth/snappy-pipeline
SNAPPY Nucleic Acid Processing in Python
Language:Python8 10 2514
bihealth/sodar-core
SODAR Core: A Django-based framework for building scientific data management web apps
Language:Python8 3 1.3k1
bihealth/clinvar-tsv
Pipeline for converting ClinVar XML files to easy-to-use TSV files
Language:Python6 7 81
bihealth/altamisa
AltamISA: a Python API for ISA-Tab files
Language:Python5 10 502
bihealth/cubi-tk
CUBI Tooling for SODAR, VarFish et al.
Language:Python4 8 1176
bihealth/reev
REEV: Explanation and Evaluation of Variants
Language:TypeScript4 5 2661
bihealth/biomedsheets
:books: JSON/TSV sample sheets for biomedical experiments
Language:Python3 7 153
bihealth/excovis
Exome Coverage Visualization
Language:Python2
bihealth/ngs-chew
Tasty, tasty, NGS!
Language:Python2 7 231
bihealth/RCrashCourse2023
Language:HTML2 7 0
bihealth/sodar-docker-compose
Setup SODAR using Docker Compose
Language:Shell2 6 472
bihealth/ood-bih-rstudio-server
Open OnDemand App: RStudio Server
Language:Shell1 6 11
bihealth/panelapp-pydantic
Pydanic models for GenomicsEngland PanelApp API
Language:Python1 4 0
bihealth/Wei_et_al_2024
Language:Jupyter Notebook1
bihealth/auto-acmg
A tool for automatic classification of sequence variants according to ACMG criteria.
Language:Python00
bihealth/hpc-access
Web interface for managing access and resource requests for the BIH cluster
Language:Python0 6 770
bihealth/cubi-literature
CUBI publications
Language:HTML5 4
bihealth/dotty
cdot-based transcript projections
Language:Python
bihealth/drf-keyed-list
fork of drf-keyed-list maintained by @bihealth
Language:Python0 1
bihealth/manuscript-Microenvironmental-acidification
Language:HTML
bihealth/nf-core-configs
Config files used to define parameters specific to compute environments at different Institutions
Language:Nextflow
bihealth/ood-bih-jupyter
Open OnDemand App: Jupyter
Language:HTML6 1
bihealth/reev-docker-compose
REEV Docker Compose
Language:Shell1
bihealth/reev-frontend-lib
Re-useable components from REEV
Language:TypeScript4 81
bihealth/StemCNV-check
Language:Python