Repositories list

• eggd_picardqc

  Public
  Shell

  •0•0•4•0•Updated Nov 28, 2024Nov 28, 2024

• eggd_conductor_configs

  Public
  Repository of eggd_conductor app and assay config files

  0•0•3•3•Updated Nov 28, 2024Nov 28, 2024

• s3_upload

  Public
  Uploads Illumina sequencing runs into Amazon S3 storage

  Python

  •

  MIT License

  •1•0•4•0•Updated Nov 28, 2024Nov 28, 2024

• eggd_ici_uploader

  Public
  Shell

  •

  MIT License

  •0•0•2•0•Updated Nov 28, 2024Nov 28, 2024

• eggd_vep_uranus_config

  Public
  Json configuration file for the implementation of VEP for the MYE assay.

  0•0•0•0•Updated Nov 28, 2024Nov 28, 2024

• eggd_uranus_main_workflow

  Public
  DNAnexus Uranus workflow to support the Haem-Onc myeloid project

  0•2•1•0•Updated Nov 28, 2024Nov 28, 2024

• egg5_dias_CEN_config

  Public
  MIT License

  •0•2•1•0•Updated Nov 28, 2024Nov 28, 2024

• rd_wgs_workbooks_monitoring

  Public
  Monitor progrees of RD WGS workbooks generation

  Python

  •0•0•3•0•Updated Nov 28, 2024Nov 28, 2024

• eggd_dias_single_workflow

  Public
  Workflow definition for Dias single

  0•2•0•0•Updated Nov 28, 2024Nov 28, 2024

• NGS_Tar_deletion

  Public
  automated deletion of NGS .tar files on DNAnexus

  0•0•0•0•Updated Nov 27, 2024Nov 27, 2024

• eggd_vcf_qc

  Public
  Simple QC of a vcf file

  Python

  •0•0•0•0•Updated Nov 27, 2024Nov 27, 2024

• eggd_GATKgCNV_call

  Public
  Python

  •

  MIT License

  •1•2•0•0•Updated Nov 27, 2024Nov 27, 2024

• eggd_vep_TWE_config

  Public
  Json configuration file for the implementation of VEP for the TWE assay.

  MIT License

  •0•1•1•0•Updated Nov 27, 2024Nov 27, 2024

• eggd_dias_reports_workflow

  Public
  Workflow definition for Dias reports

  0•1•1•0•Updated Nov 27, 2024Nov 27, 2024

• trendyQC

  Public
  Django app for monitoring trends in MultiQC data

  Python

  •

  MIT License

  •0•0•31•1•Updated Nov 27, 2024Nov 27, 2024

• clinvar_submissions

  Public
  Python

  •

  MIT License

  •0•0•2•0•Updated Nov 27, 2024Nov 27, 2024

• clinvar_submissions_config

  Public
  0•0•0•0•Updated Nov 27, 2024Nov 27, 2024

• eggd_vep_helios_config

  Public
  MIT License

  •0•0•1•0•Updated Nov 26, 2024Nov 26, 2024

• RD_requests

  Public
  Python

  •

  MIT License

  •1•0•0•1•Updated Nov 26, 2024Nov 26, 2024

• eggd_vep_CEN_config

  Public
  Json configuration file for the implementation of VEP for the CEN assay.

  MIT License

  •0•1•1•0•Updated Nov 26, 2024Nov 26, 2024

• eggd_dias_cnvreports_workflow

  Public
  MIT License

  •0•1•0•0•Updated Nov 26, 2024Nov 26, 2024

• eggd_CANRISK_vcf

  Public
  Shell

  •

  MIT License

  •0•0•2•1•Updated Nov 26, 2024Nov 26, 2024

• themis

  Public
  Code for internal bioinformatics team auditing

  Python

  •

  MIT License

  •0•3•0•0•Updated Nov 25, 2024Nov 25, 2024

• athena

  Public
  Provides HTML reports with detailed coverage analysis for clinical NGS data.

  coveragengspython+ 1bioinformatics

  HTML

  •

  MIT License

  •2•4•13•0•Updated Nov 21, 2024Nov 21, 2024

• eggd_CANRISK_workflow

  Public
  MIT License

  •0•0•0•0•Updated Nov 20, 2024Nov 20, 2024

• eggd_conductor_monitor

  Public
  Monitoring script for checking and notifying status of jobs launched with eggd_conductor

  Python

  •

  MIT License

  •0•0•2•0•Updated Nov 19, 2024Nov 19, 2024

• eggd_generate_variant_workbook

  Public
  DNAnexus app for generating xlsx variant workbooks

  Python

  •0•3•12•0•Updated Nov 19, 2024Nov 19, 2024

• phoenix

  Public
  Automated annotation resource updates

  Python

  •

  MIT License

  •0•0•6•1•Updated Nov 19, 2024Nov 19, 2024

• eggd_conductor

  Public
  DNAnexus app for automated analysis

  Python

  •

  MIT License

  •1•1•22•0•Updated Nov 14, 2024Nov 14, 2024

• Haemonc_requests

  Public
  Python

  •0•1•0•0•Updated Nov 13, 2024Nov 13, 2024