Repositories list

• athena

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

  coveragengspython+ 1bioinformatics

  HTML

  •

  MIT License

  •2•4•13•0•Updated Jan 16, 2025Jan 16, 2025

• eggd_GATKgCNV_call

  Public
  Python

  •

  MIT License

  •1•2•0•0•Updated Jan 16, 2025Jan 16, 2025

• trendyQC

  Public
  Django app for monitoring trends in MultiQC data

  Python

  •

  MIT License

  •0•1•33•2•Updated Jan 16, 2025Jan 16, 2025

• eggd_fusioninspector

  Public
  solidcancer

  Shell

  •

  MIT License

  •0•2•0•1•Updated Jan 16, 2025Jan 16, 2025

• NGS_Tar_deletion

  Public
  automated deletion of NGS .tar files on DNAnexus

  0•0•0•1•Updated Jan 14, 2025Jan 14, 2025

• uranus_nf_core_mini

  Public
  A mini uranus mostly nf-core pipeline that incorporates mosdepth, cggpindel (not nf-core) and sentieon bwamem

  Nextflow

  •0•0•0•0•Updated Jan 14, 2025Jan 14, 2025

• eggd_generate_rd_wgs_workbook

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Jan 14, 2025Jan 14, 2025

• eggd_conductor

  Public
  DNAnexus app for automated analysis

  Python

  •

  MIT License

  •1•1•23•0•Updated Jan 14, 2025Jan 14, 2025

• Haemonc_requests

  Public
  Python

  •0•1•1•1•Updated Jan 13, 2025Jan 13, 2025

• Uranus_nextflow_mini

  Public
  A mini Uranus pipeline including bwamem, cgppindel and sompy.

  Nextflow

  •0•0•0•0•Updated Jan 13, 2025Jan 13, 2025

• eggd_conductor_configs

  Public
  Repository of eggd_conductor app and assay config files

  0•0•2•1•Updated Jan 13, 2025Jan 13, 2025

• eggd_vep

  Public
  Shell

  •0•1•9•0•Updated Jan 13, 2025Jan 13, 2025

• MegaQC

  Public
  Web application to collect and visualise data across multiple MultiQC runs.

  Python

  •

  GNU General Public License v3.0

  •27•1•0•0•Updated Jan 11, 2025Jan 11, 2025

• simple-variant-table

  Public
  HTML

  •

  MIT License

  •0•0•0•0•Updated Jan 10, 2025Jan 10, 2025

• eggd_vcf_handler_for_uranus

  Public
  Python

  •0•1•1•0•Updated Jan 9, 2025Jan 9, 2025

• eggd_MultiQC_configs

  Public
  0•0•3•0•Updated Jan 8, 2025Jan 8, 2025

• eggd_001_Reference

  Public
  Perl

  •1•1•9•2•Updated Jan 8, 2025Jan 8, 2025

• RD_requests

  Public
  Python

  •

  MIT License

  •1•0•0•0•Updated Jan 7, 2025Jan 7, 2025

• eggd_dias_reports_workflow

  Public
  Workflow definition for Dias reports

  0•1•1•0•Updated Jan 7, 2025Jan 7, 2025

• eggd_multiqc

  Public
  Shell

  •0•1•0•1•Updated Jan 6, 2025Jan 6, 2025

• eggd_generate_bed

  Public
  Python

  •0•1•2•0•Updated Jan 5, 2025Jan 5, 2025

• egg4_dias_TWE_config

  Public
  Config for the Dias TWE assay

  0•1•0•0•Updated Jan 5, 2025Jan 5, 2025

• eggd_generate_variant_workbook

  Public
  DNAnexus app for generating xlsx variant workbooks

  Python

  •0•3•12•0•Updated Jan 4, 2025Jan 4, 2025

• eggd_somalier_relate2multiqc

  Public
  Python

  •0•1•0•0•Updated Jan 4, 2025Jan 4, 2025

• eggd_somalier_extract

  Public
  Shell

  •

  MIT License

  •0•2•0•0•Updated Jan 3, 2025Jan 3, 2025

• g2t_ops

  Public
  Operations relating to genes and transcripts

  Python

  •0•1•0•0•Updated Jan 3, 2025Jan 3, 2025

• eggd_uranus_main_workflow

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

  0•2•1•0•Updated Jan 2, 2025Jan 2, 2025

• TSO500Reporter

  Public
  Python

  •1•2•1•0•Updated Jan 2, 2025Jan 2, 2025

• eggd_nimagen_to_gel_vcf

  Public
  Shell

  •0•1•0•0•Updated Jan 2, 2025Jan 2, 2025

• eggd_bcl2fastq

  Public
  Shell

  •0•1•7•0•Updated Jan 2, 2025Jan 2, 2025