Repositories list

• RD_requests

  Public
  Python

  •

  MIT License

  •0•0•0•1•Updated Oct 31, 2024Oct 31, 2024

• eggd_generate_variant_workbook

  Public
  DNAnexus app for generating xlsx variant workbooks

  Python

  •0•3•14•0•Updated Oct 31, 2024Oct 31, 2024

• eggd_conductor

  Public
  DNAnexus app for automated analysis

  Python

  •

  MIT License

  •1•1•20•1•Updated Oct 31, 2024Oct 31, 2024

• s3_upload

  Public
  Uploads Illumina sequencing runs into Amazon S3 storage

  Python

  •

  MIT License

  •0•0•6•1•Updated Oct 31, 2024Oct 31, 2024

• eggd_ici_uploader

  Public
  MIT License

  •0•0•0•0•Updated Oct 31, 2024Oct 31, 2024

• clinvar_submissions

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Oct 31, 2024Oct 31, 2024

• clinvar_submissions_config

  Public
  0•0•0•0•Updated Oct 31, 2024Oct 31, 2024

• athena

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

  coveragengspython+ 1bioinformatics

  HTML

  •

  MIT License

  •2•4•12•0•Updated Oct 30, 2024Oct 30, 2024

• egg5_dias_CEN_config

  Public
  MIT License

  •0•2•1•1•Updated Oct 29, 2024Oct 29, 2024

• eggd_conductor_configs

  Public
  Repository of eggd_conductor app and assay config files

  0•0•3•2•Updated Oct 29, 2024Oct 29, 2024

• NGS_Tar_deletion

  Public
  automated deletion of NGS .tar files on DNAnexus

  0•0•0•0•Updated Oct 29, 2024Oct 29, 2024

• trendyQC

  Public
  Django app for monitoring trends in MultiQC data

  Python

  •

  MIT License

  •0•0•26•2•Updated Oct 28, 2024Oct 28, 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 Oct 28, 2024Oct 28, 2024

• eggd_CANRISK_vcf

  Public
  Shell

  •

  MIT License

  •0•0•0•0•Updated Oct 28, 2024Oct 28, 2024

• egg4_dias_TWE_config

  Public
  Config for the Dias TWE assay

  0•1•0•0•Updated Oct 28, 2024Oct 28, 2024

• eggd_vep_helios_config

  Public
  MIT License

  •0•0•1•0•Updated Oct 24, 2024Oct 24, 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 Oct 24, 2024Oct 24, 2024

• eggd_vep_uranus_config

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

  0•0•0•0•Updated Oct 18, 2024Oct 18, 2024

• eggd_vcf_rescue

  Public
  Shell

  •

  MIT License

  •0•2•0•0•Updated Oct 9, 2024Oct 9, 2024

• eggd_dias_single_workflow

  Public
  Workflow definition for Dias single

  0•2•0•0•Updated Oct 8, 2024Oct 8, 2024

• phoenix

  Public
  Automated annotation resource updates

  Python

  •

  MIT License

  •0•0•0•1•Updated Oct 4, 2024Oct 4, 2024

• eggd_arriba

  Public
  0•0•0•0•Updated Oct 4, 2024Oct 4, 2024

• MultiQC

  Public
  Aggregate results from bioinformatics analyses across many samples into a single report.

  JavaScript

  •

  GNU General Public License v3.0

  •601•0•0•0•Updated Oct 3, 2024Oct 3, 2024

• eggd_001_Reference

  Public
  Perl

  •1•1•9•2•Updated Oct 2, 2024Oct 2, 2024

• eggd_generate_rd_wgs_workbook

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Sep 30, 2024Sep 30, 2024

• eggd_vcf_qc

  Public
  Simple QC of a vcf file

  Python

  •0•0•0•0•Updated Sep 27, 2024Sep 27, 2024

• eggd_qDNAseq_ACE

  Public
  MIT License

  •0•0•0•0•Updated Sep 25, 2024Sep 25, 2024

• eggd_dias_batch

  Public
  Python

  •1•1•6•0•Updated Sep 24, 2024Sep 24, 2024

• Haemonc_requests

  Public
  Python

  •0•1•0•0•Updated Sep 18, 2024Sep 18, 2024

• mutect2_nextflow

  Public
  Shell

  •

  MIT License

  •0•0•3•0•Updated Sep 18, 2024Sep 18, 2024