Owner
eastgenomics
104 indexed repositories · View on GitHub
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eggd_tso500
Runs the Illumina TSO500 local analysis app.
Shell · 5 stars
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athena
Provides HTML reports with detailed coverage analysis for clinical NGS data.
HTML · 5 stars
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eggd_mosdepth
mosdepth (DNAnexus Platform App)
Shell · 4 stars
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Python · 3 stars
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Shell · 3 stars
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themis
Code for internal bioinformatics team auditing
Python · 3 stars
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Python · 2 stars
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Python · 2 stars
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Shell · 2 stars
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eggd_vcf_rescue
DNAneuxs app to rescue filtered out variants against known sites or non-PASS
Shell · 2 stars
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s3_upload
Uploads Illumina sequencing runs into Amazon S3 storage
Python · 2 stars
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eggd_uranus_main_workflow
DNAnexus Uranus workflow to support the Haem-Onc myeloid project
2 stars
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eggd_generate_variant_workbook
DNAnexus app for generating xlsx variant workbooks
Python · 2 stars
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automated-archiving
Python script to monitor archiving on DNANexus
Python · 2 stars
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trendyQC
Django app for monitoring trends in MultiQC data
Python · 2 stars
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eggd_iva_upload
Push data to IVA
Shell · 1 star
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hermes
East Genomics private Slack bot !
Python · 1 star
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eggd_dx_checker
App to check for effects of weekly DNAnexus updates
Shell · 1 star
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eggd_bam2fqs
Convert BAM file to fastqs
Shell · 1 star
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KASP_to_VCF
Converts KASP SNP genotyping csv output to VCF
Python · 1 star
- 84 more repositories live on View on GitHub
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eastgenomics/eggd_iva_upload#3 · 0 comments · 0 reactions · 1 assignee ·
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feature_request
eastgenomics/hermes#5 · 1 comment · 0 reactions · 0 assignees ·
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bug
eastgenomics/eggd_dx_checker#2 · 1 comment · 0 reactions · 0 assignees ·
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bug
eastgenomics/eggd_workflow_dias#1 · 1 comment · 0 reactions · 0 assignees ·
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feature_request
eastgenomics/eggd_workflow_dias#2 · 1 comment · 0 reactions · 0 assignees ·
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Use htslib app asset Open
eastgenomics/eggd_bam2fqs#6 · 0 comments · 0 reactions · 0 assignees ·
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Needs documentation Open
eastgenomics/KASP_to_VCF#4 · 0 comments · 0 reactions · 0 assignees ·
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Readme? Open
eastgenomics/KASP_to_VCF#5 · 0 comments · 0 reactions · 0 assignees ·
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Update Nirvana Openbug enhancement
eastgenomics/eggd_nirvana#3 · 0 comments · 0 reactions · 0 assignees ·
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good first issue
eastgenomics/eggd_nirvana#12 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/eggd_nirvana#18 · 3 comments · 0 reactions · 0 assignees ·
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eastgenomics/eggd_pindel#2 · 0 comments · 0 reactions · 0 assignees ·
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documentation
eastgenomics/eggd_pindel#3 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/array_backup#2 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/array_backup#3 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/eggd_tso500reporter#2 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/sWGS_batch#1 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/ConfirmationThresholds#5 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/ConfirmationThresholds#6 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/ConfirmationThresholds#7 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/ConfirmationThresholds#8 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/eggd_confirmation_thresholds#2 · 0 comments · 0 reactions · 0 assignees ·
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Update readme Open
eastgenomics/OPA_IGV_batch_snapshots#10 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/eggd_tandem_hunter#4 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/test_directory_checker#2 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/panel_palace#8 · 0 comments · 0 reactions · 0 assignees ·
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Update samtools Open
eastgenomics/eggd_samtools_flagstat#3 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/eggd_samtools_flagstat#4 · 1 comment · 0 reactions · 0 assignees ·
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eastgenomics/eggd_samtools_flagstat#5 · 1 comment · 0 reactions · 0 assignees ·
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App name Open
eastgenomics/eggd_update_runfolders#2 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/eggd_update_runfolders#3 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/eggd_update_runfolders#8 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/eggd_update_runfolders#9 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/eggd_update_runfolders#12 · 1 comment · 0 reactions · 0 assignees ·
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multiple input files Open
eastgenomics/submit_variants_INCA#3 · 0 comments · 0 reactions · 0 assignees ·
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Update dependencies Open
eastgenomics/genepanel-g2t-comparison-scripts#3 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/gene_annotation2bed#5 · 0 comments · 0 reactions · 0 assignees ·
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bug
eastgenomics/gene_annotation2bed#9 · 0 comments · 0 reactions · 1 assignee ·
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outputs in subfolder Open
eastgenomics/variant_workbook_parser#8 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/variant_workbook_parser#13 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/iscan_to_dnanexus#2 · 0 comments · 0 reactions · 0 assignees ·
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Typo in readme Open
eastgenomics/iscan_to_dnanexus#4 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/iscan_to_dnanexus#5 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/iscan_to_dnanexus#6 · 0 comments · 0 reactions · 0 assignees ·
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enhancement good first issue
eastgenomics/iscan_to_dnanexus#8 · 0 comments · 0 reactions · 1 assignee ·
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enhancement
eastgenomics/iscan_to_dnanexus#11 · 1 comment · 0 reactions · 0 assignees ·
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eastgenomics/dias_reports_bulk_reanalysis#42 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/dias_reports_bulk_reanalysis#44 · 0 comments · 0 reactions · 0 assignees ·
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eastgenomics/dias_reports_bulk_reanalysis#45 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
eastgenomics/dias_reports_bulk_reanalysis#57 · 0 comments · 0 reactions · 0 assignees ·