Explore @genepi Open Source projects

Institute of Genetic Epidemiology (@genepi)

genepi

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Nextflow 2

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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

nf-gwas

A nextflow pipeline to perform state-of-the-art genome-wide association studies.

cloudgene

A framework to build Software As A Service (SaaS) platforms for data analysis pipelines.

haplogrep3

Free mtDNA Haplogroup Classification Service

imputationserver-docker

Docker Image for Michigan Imputation Server

haplocheck

Phylogeny-based Contamination Detection in Mitochondrial and Whole-Genome Sequencing Studies

cloudgene-old

Please note that this repository is deprecated. Please use genepi/cloudgene

23andme-tools

Convert 23andMe data to VCFs

mtdna-server-2

mtDNA-Server 2: A web-service and Nextflow pipeline for mitochondrial genomes

cloudflow

Cloudflow is a MapReduce and Spark pipeline framework to simplify the pipeline creation in biomedical research, especially in the field of Genetics.

cdh5-hadoop-mrv2

Docker Image of Cloudera Hadoop MapReduce (MRv2, YARN)

imputationserver-aws

Running Michigan Imputation Server (MIS) on AWS EMR

phylotree-rcrs-17

ngs-class

Next Gen Sequencing Course - Medical University of Innsbruck

umi-pipeline-nf

Nextflow pipeline to analyze ONT UMI Sequencing data

genomic-utils

Collection of tools to work with genomic datasets

phylotree-fu-rcrs

imputationserver2

mitoverse

Documentation for the Mitoverse Platform

cloudgene-samples-old

Please note that this repository is *deprecated*. Please use genepi/cloudgene-examples

imputationserver-tutorial

A step by step tutorial for the TOPMed Workshop (April 30 - May 1 2018, Ann Arbor)

cdh5-hadoop-mrv1

Docker Image for Cloudera Hadoop MapReduce (MRv1)

thesis-clemens

Master Thesis Clemens Banas

cloudgene-docker

Docker Image for Cloudgene

umit-biostatistics

Biostatistics 1 - https://genepi.github.io/umit-biostatistics/

genepi-libs

Genepi Libraries

cloudgene-examples

Example applications to start with Cloudgene

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.

lpa-pipeline

detecting low-level variants in CNVs

imputationserver-utils

vntr-calling-nf