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    33 repositories

    • VRE

      Public
      MuG Virtual Research Environment
      phpvre
      JavaScript
      •
      Apache License 2.0
      •0•6•0•4•Updated Jul 7, 2020Jul 7, 2020

    • VRE_data_api

      Public
      Simple API remotely accessing the VRE user files
      C++
      •2•0•0•0•Updated Dec 12, 2019Dec 12, 2019

    • pyCHiC

      Public
      Repository containing pipeline and tools to analyse capture Hi-C data
      Python
      •
      Apache License 2.0
      •1•0•0•0•Updated Mar 1, 2019Mar 1, 2019

    • CHi-C

      Public
      workflow
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Feb 25, 2019Feb 25, 2019

    • VRE_tool_jsons

      Public
      VRE-tool integration
      Python
      •1•0•0•0•Updated Jan 11, 2019Jan 11, 2019

    • mg-tool-api

      Public
      This library outlines the main structures related to the tools section of the VRE.
      api
      Python
      •
      Apache License 2.0
      •3•2•2•0•Updated Nov 27, 2018Nov 27, 2018

    • Bam_QC

      Public
      Wrapper for BamQC
      Python
      •
      Apache License 2.0
      •1•0•0•0•Updated Nov 20, 2018Nov 20, 2018

    • mg-process-fastq

      Public
      Scripts required for the processing of FASTQ files (eg generating adjacency lists for Hi-C data)
      workflow
      Python
      •
      Apache License 2.0
      •3•1•13•2•Updated Nov 19, 2018Nov 19, 2018

    • mg-process-test

      Public
      Example pipelines file that is ready to run in the VRE matching the code in the HowTo documentation
      workflow
      Python
      •
      Apache License 2.0
      •1•1•0•0•Updated Nov 5, 2018Nov 5, 2018

    • mg-docs

      Public
      Documentation for developers creating tools and pipelines for the MuG VRE
      Shell
      •
      Apache License 2.0
      •0•0•0•0•Updated Nov 5, 2018Nov 5, 2018

    • ATAC-Seq

      Public
      workflow
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 31, 2018Oct 31, 2018

    • mg-misc-scripts

      Public
      Miscellaneous scripts for mg-process-fastq
      Python
      •0•0•0•0•Updated Oct 31, 2018Oct 31, 2018

    • mg-process-files

      Public
      Scripts for processing bed, wig and tsv files ready for indexing for the RESTful servers.
      workflow
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 31, 2018Oct 31, 2018

    • mg-process-macs2

      Public
      Pipeline wrapping the MACS2 tool for the MuG Tool Developers API Workshop
      workflow
      Python
      •
      Apache License 2.0
      •2•0•0•0•Updated Sep 13, 2018Sep 13, 2018

    • pydockdna_tool

      Public
      VRE pyDockDNA tool manager
      C++
      •
      MIT License
      •0•1•0•0•Updated Aug 17, 2018Aug 17, 2018

    • mg-dm-api

      Public
      API for the management of file locations and users within the MuG VRE
      api
      Python
      •
      Apache License 2.0
      •2•0•2•0•Updated Aug 15, 2018Aug 15, 2018

    • mg-common

      Public
      Common functions that are not specific to a given workflow or tool
      workflow
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Aug 2, 2018Aug 2, 2018

    • mg-process-benchmark

      Public
      Wrappers around mg Tools that have been written in Luigi so that they can be run on alternative cluster technologies to aid in benchmarking the pipelines
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Apr 11, 2018Apr 11, 2018

    • mg-rest-3d

      Public
      RESTful API for TADbit generated 3D coordinates
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Dec 21, 2017Dec 21, 2017

    • mg-rest-adjacency

      Public
      RESTful API providing adjacency data stored in hdf5 files that have been generated with the scripts in the mg-storage-hdf5 / mg-process-fastq repo
      Python
      •
      Apache License 2.0
      •0•1•0•0•Updated Dec 20, 2017Dec 20, 2017

    • Multiscale-Genomics.github.io

      Public
      Github.io Jekyll site for the Multiscal Genomics repository
      CSS
      •
      MIT License
      •35k•0•0•0•Updated Nov 23, 2017Nov 23, 2017

    • mg-rest-util

      Public
      Util functions common to all rest services
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Nov 1, 2017Nov 1, 2017

    • mg-rest-service

      Public
      Service to monitor REST live services
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 31, 2017Oct 31, 2017

    • mg-rest-dm

      Public
      RESTful access to the DMP
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 31, 2017Oct 31, 2017

    • mg-rest-file

      Public
      Data retrieval of files or sections of files
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 31, 2017Oct 31, 2017

    • mg-rest-tad

      Public
      RESTful API to TAD predictions
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Jan 26, 2017Jan 26, 2017

    • mugin

      Public
      The MuG Information Network visualises information flow in Multiscale Complex Genomics.
      JavaScript
      •1•0•0•0•Updated Nov 8, 2016Nov 8, 2016

    • DNAFlexBrowser

      Public
      The DNA Flex Browser lets you navigate through sequence-dependent DNA flexibility data.
      JavaScript
      •1•0•0•0•Updated Nov 8, 2016Nov 8, 2016

    • mg-rest-ge

      Public
      REST API for gene expression data generated as part of teh MuG project.
      0•0•0•0•Updated Nov 4, 2016Nov 4, 2016

    • DNAflexsuite

      Public
      A suite of tools to predict DNA flexibility from sequence at different resolutions
      Python
      •2•0•0•0•Updated Nov 1, 2016Nov 1, 2016