Center for Statistical Genetics

Repositories

• locuszoom

  A Javascript/d3 embeddable plugin for interactively visualizing statistical genetic data from customizable sources.

  gwas locuszoom gwas-tools gwas-summary-statistics locuszoom-plot
  JavaScript MIT 21 90 16 2 Updated Dec 11, 2020

• gwas-credible-sets

  Credible set determination in GWAS results
  JavaScript MIT 2 3 0 3 Updated Dec 10, 2020

• raremetal.js

  JS implementation of rare variant aggregation tests

  genetics
  JavaScript MIT 1 1 1 0 Updated Dec 9, 2020

• demuxlet

  Genetic multiplexing of barcoded single cell RNA-seq
  C++ Apache-2.0 19 73 49 3 Updated Dec 9, 2020

• encore

  Encore Analysis Server
  Python AGPL-3.0 4 10 0 0 Updated Dec 9, 2020

• LDServer

  Fast API server for calculating linkage disequilibrium

  genetics
  C++ GPL-3.0 1 7 3 0 Updated Dec 4, 2020

• libStatGen

  Useful set of classes for creating statistical genetic programs.
  C++ 25 42 7 1 Updated Dec 1, 2020

• Minimac4
  C++ GPL-3.0 9 21 24 2 Updated Nov 30, 2020

• topmed_variant_calling
  C++ Apache-2.0 2 9 2 0 Updated Nov 25, 2020

• fivex

  Interactive eQTL visualizations
  Vue MIT 0 2 6 1 Updated Nov 19, 2020

• savvy

  Interface to various variant calling formats.
  C++ MPL-2.0 1 13 4 0 Updated Nov 16, 2020

• localzoom

  Make interactive LocusZoom plots from a local GWAS file

  gwas gwas-catalog locuszoom gwas-pipeline gwas-tools gwas-summary-statistics locuszoom-plot
  Vue MIT 2 3 2 0 Updated Nov 9, 2020

• pheweb

  A tool to build multi-phenotype GWAS browsers
  Python AGPL-3.0 29 74 65 1 Updated Nov 9, 2020

• locuszoom-hosted

  A web service to upload and share GWAS results with LocusZoom.js

  gwas locuszoom gwas-pipeline gwas-tools gwas-summary-statistics locuszoom-plot
  Python MIT 0 0 8 1 Updated Nov 5, 2020

• imputationserver

  Forked from genepi/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
  Java AGPL-3.0 13 0 3 0 Updated Nov 5, 2020

• cloudgene

  Forked from genepi/cloudgene

  A framework to build Software As A Service (SaaS) platforms for data analysis pipelines.
  Java AGPL-3.0 8 0 0 0 Updated Nov 5, 2020

• ruth

  Robust Unified Hardy-Weinberg Equilibrium Test
  C++ Apache-2.0 0 2 4 0 Updated Nov 2, 2020

• EPACTS
  C++ GPL-3.0 15 25 18 4 Updated Oct 19, 2020

• raremetal

  A flexible tool for meta-analysis

  gwas
  C++ 6 5 18 1 Updated Oct 17, 2020

• RNA-seq-tracking

  Tracks TOPMed OMICS qc progress
  PHP 0 0 0 0 Updated Oct 14, 2020

• terraform-imputation-server-modules

  Wrapper modules for Imputation Server infrastructure
  HCL 0 1 0 0 Updated Oct 2, 2020

• genepi-libs

  Forked from genepi/genepi-libs

  Genepi Libraries
  Java Apache-2.0 2 0 0 0 Updated Sep 3, 2020

• monitor-topmed
  Perl 0 0 0 0 Updated Sep 1, 2020

• locuszoom-api

  Flask server code for LocusZoom APIs
  Python 2 0 0 0 Updated Aug 6, 2020

• bravo

  BRowse All Variants Online
  HTML MIT 4 8 1 4 Updated Aug 4, 2020

• METAL

  Meta-analysis of genomewide association scans
  C++ 3 11 4 0 Updated Jul 30, 2020

• LASER

  Locating Ancestry from SEquence Reads

  genetics ancestry-estimation
  C++ GPL-3.0 3 3 4 0 Updated Jul 10, 2020

• Rprs

  R package for computing Polygenic Risk Scores (PRS)

  gwas
  R GPL-3.0 1 2 1 0 Updated Jul 9, 2020

• m3vcftools

  Forked from Santy-8128/m3vcftools
  C++ 4 0 0 0 Updated Jul 6, 2020

• popscle

  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and auxilary tools

  rna-seq single-cell-rna-seq demultiplex single-cell-omics single-cell-sequencing
  C++ Apache-2.0 6 19 14 0 Updated Jun 16, 2020