Pinned Repositories
23andme-tools
Convert 23andMe data to VCFs
cloudflow
Cloudflow is a MapReduce and Spark pipeline framework to simplify the pipeline creation in biomedical research, especially in the field of Genetics.
cloudgene
A framework to build Software As A Service (SaaS) platforms for data analysis pipelines.
cloudgene-old
Please note that this repository is deprecated. Please use genepi/cloudgene
haplocheck
Phylogeny-based Contamination Detection in Mitochondrial and Whole-Genome Sequencing Studies
haplogrep3
Free mtDNA Haplogroup Classification Service
imputationserver
Michigan Imputation Server: A new web-based service for imputation that facilitates access to new reference panels and greatly improves user experience and productivity
imputationserver-docker
Docker Image for Michigan Imputation Server
mtdna-server-2
mtDNA-Server 2: A web-service and Nextflow pipeline for mitochondrial genomes
nf-gwas
A nextflow pipeline to perform state-of-the-art genome-wide association studies.
Institute of Genetic Epidemiology's Repositories
genepi/imputationserver-docker
Docker Image for Michigan Imputation Server
genepi/cloudgene-old
Please note that this repository is deprecated. Please use genepi/cloudgene
genepi/23andme-tools
Convert 23andMe data to VCFs
genepi/cloudflow
Cloudflow is a MapReduce and Spark pipeline framework to simplify the pipeline creation in biomedical research, especially in the field of Genetics.
genepi/cdh5-hadoop-mrv2
Docker Image of Cloudera Hadoop MapReduce (MRv2, YARN)
genepi/pig-gene
Due to the vast progress in sequencing, data volumes in bioinformatics are increasing dramatically. Therefore, the aim of this work is the development of a graphical generation platform for Apache Pig scripts called PigGene to analyze data in a massively parallel way. Users are guided through the building process of scripts by an intuitive user interface and are able to generate workflow definitions for complex data queries on the fly. Generated scripts are ready to use and can be further executed directly on Cloudgene, a graphical MapReduce execution platform. PigGene can be extended by user scripts and supports especially inexperienced users in the area of bioinformatics.
genepi/cdh5-hadoop-mrv1
Docker Image for Cloudera Hadoop MapReduce (MRv1)
genepi/cloudgene-docker
Docker Image for Cloudgene
genepi/cloudgene-examples
Example applications to start with Cloudgene
genepi/cloudgene-samples-old
Please note that this repository is *deprecated*. Please use genepi/cloudgene-examples
genepi/imputationserver-tutorial
A step by step tutorial for the TOPMed Workshop (April 30 - May 1 2018, Ann Arbor)
genepi/lpa-pipeline
detecting low-level variants in CNVs
genepi/thesis-clemens
Master Thesis Clemens Banas
genepi/umit-biostatistics
Biostatistics 1 - https://genepi.github.io/umit-biostatistics/
genepi/r21x_analysis
genepi/apps-cloudgene-io
Source of http://apps.cloudgene.io
genepi/bwa
Burrow-Wheeler Aligner
genepi/cloudflow-wordcount
Wordcount for Cloudflow (https://github.com/genepi/cloudflow)
genepi/cloudgene-website
Cloudgene Website
genepi/genepi.github.io
This website is a central place to find Open Source packages from Genepi.
genepi/jbwa
Java Bindings (JNI) for bwa
genepi/maven-repository
genepi-libs Maven Repository (genepi-io, genepi-hadoop, genepi-db)
genepi/pig-gene-ngs
genepi/r-cran-docker
genepi/teaching
Teaching Material Genepi