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    35 repositories

    • scscape

      Public
      R
      •
      MIT License
      •1•1•10•1•Updated Dec 3, 2024Dec 3, 2024

    • scrnaseq_scripts

      Public
      Repository for Storing and Updating scrnaseq scritps (R)
      R
      •0•0•20•0•Updated Dec 2, 2024Dec 2, 2024

    • axobase

      Public
      CSS
      •0•0•0•0•Updated Nov 12, 2024Nov 12, 2024

    • scrnaseq_course_2024

      Public
      Course material for the ScRNAseq in the Cloud: Pipelines to Insights 2024 hosted at MDIBL
      1•2•0•0•Updated Oct 28, 2024Oct 28, 2024

    • workflows_in_the_cloud

      Public
      Workflows in the Cloud
      0•2•0•0•Updated Apr 26, 2024Apr 26, 2024

    • biocore_documentation

      Public
      Central repo for all non-project-specific documentation. Includes biocore best practices and guidelines.
      Apache License 2.0
      •1•0•2•1•Updated Jun 24, 2022Jun 24, 2022

    • mdibl_cloud_control

      Public
      Go
      •1•0•0•0•Updated Feb 25, 2022Feb 25, 2022

    • TransPi

      Public
      TransPi – a comprehensive TRanscriptome ANalysiS PIpeline for de novo transcriptome assembly
      Nextflow
      •
      Other
      •15•0•0•0•Updated Jan 2, 2022Jan 2, 2022

    • tximport_R

      Public
      Repo for tximport R script and accompanying JSON config file
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Dec 12, 2021Dec 12, 2021

    • biocore_automated-pca

      Public
      A collection of bash and R scripts intended to automate principle components analysis
      R
      •0•0•0•0•Updated Aug 31, 2021Aug 31, 2021

    • one-factor_deseq2

      Public
      Repository for working with our DEseq2 R script
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 13, 2021May 13, 2021

    • cwl_development

      Public
      a test repository to explore re-organizing and re-structing biocore_analysis
      Common Workflow Language
      •
      GNU General Public License v3.0
      •2•0•0•1•Updated Dec 23, 2020Dec 23, 2020

    • biocore_analysis

      Public
      A root directory for Biocore pipeline analysis
      Common Workflow Language
      •
      GNU General Public License v3.0
      •0•0•5•0•Updated Jul 15, 2020Jul 15, 2020

    • IDEA

      Public
      Repo for Integrated Differential Expression Analyzer
      Python
      •
      MIT License
      •1•1•0•1•Updated Jun 27, 2020Jun 27, 2020

    • george_murray

      Public
      contains practice exercises
      Python
      •1•0•0•1•Updated Jun 2, 2020Jun 2, 2020

    • biocore_utils

      Public
      Resources for RNA-SEQ pipeline analysis
      pythonjenkinscloudamazon-ec2ec2-instancecwlcfgsjenkins-masterbiocoreworker-nodes
      Python
      •2•0•11•0•Updated Jan 23, 2020Jan 23, 2020

    • package_downloads

      Public
      A repository to create automations that download and Install external bioinformatics packages.
      pipelinesystem-managementbioinformatics-tool
      Shell
      •0•1•5•0•Updated Jan 2, 2020Jan 2, 2020

    • pipeline_prep

      Public
      bioinformaticsdatasets
      Shell
      •1•0•14•0•Updated Dec 30, 2019Dec 30, 2019

    • data_downloads

      Public
      A repository to create automations that download external datasets
      bioinformatics-datasystem-managementbiocorereference-maintenancedataset-downloads
      Shell
      •0•0•3•0•Updated Dec 30, 2019Dec 30, 2019

    • biocore_misc

      Public
      A repository to store miscellaneous scripts and programs used for different admin purposes
      Python
      •0•0•0•0•Updated Dec 30, 2019Dec 30, 2019

    • UGGS

      Public
      Repo for Unusual Gene Group Selector python project
      Python
      •0•0•0•0•Updated Sep 12, 2019Sep 12, 2019

    • DataVisualizationApp

      Public
      Python
      •0•0•0•0•Updated Aug 13, 2019Aug 13, 2019

    • rna_seq_pipeline_param

      Public
      modified cwl workflows for parameter tweaking
      Python
      •0•0•0•0•Updated Jul 15, 2019Jul 15, 2019

    • flask_server

      Public
      Python
      •0•0•0•0•Updated Jun 20, 2019Jun 20, 2019

    • flask_app

      Public
      HTML
      •0•0•0•0•Updated Jun 20, 2019Jun 20, 2019

    • kristophN

      Public
      HTML
      •0•0•0•0•Updated Jun 4, 2019Jun 4, 2019

    • biocore_projects

      Public
      Repo to contain analysis/json/config/metadata files and descriptions
      Shell
      •0•0•0•0•Updated May 20, 2019May 20, 2019

    • zebrafish_embyo_2018

      Public
      Shell
      •0•2•0•0•Updated Aug 21, 2018Aug 21, 2018

    • ERCCNormalization

      Public
      Experimenting with ERCC spike in normalization
      0•0•0•0•Updated Jul 13, 2018Jul 13, 2018

    • andreaT

      Public
      0•0•0•0•Updated Jul 10, 2018Jul 10, 2018