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@uclanelsonlab UCLA Nelson Lab

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    14 repositories

    • nl-wgs_wf

      Public
      Whole genome sequecing pipeline for germline short-read data
      Nextflow
      •
      MIT License
      •0•0•3•0•Updated Aug 31, 2026Aug 31, 2026

    • nl-rna-seq_wf

      Public
      RNA-seq for rare diseases pipeline using nextflow
      rare-variant-analysisrare-diseasenextflow-pipeline
      rare-variant-analysisrare-diseasenextflow-pipelinernaseq-pipeline
      Nextflow
      •
      MIT License
      •0•1•2•0•Updated Aug 14, 2026Aug 14, 2026

    • rnaseq-portal

      Public
      CCRD RNAseq portal
      R
      •
      MIT License
      •0•0•1•0•Updated Jul 9, 2026Jul 9, 2026

    • nl-snrna-seq_wf

      Public
      Single Cell RNAseq pipeline
      Nextflow
      •
      MIT License
      •0•0•0•0•Updated Feb 12, 2026Feb 12, 2026

    • udn_client

      Public
      copy files from UDN Gateway (AWS backend) to DNAnexus
      HTML
      •0•0•0•0•Updated Oct 7, 2025Oct 7, 2025

    • nl-rna-varcall

      Public
      Variant calling pipeline for RNAseq aligned data
      Nextflow
      •
      MIT License
      •0•0•0•0•Updated Aug 26, 2025Aug 26, 2025

    • wgs_qc_wf

      Public
      Workflow used to check QC for WGS data
      Nextflow
      •
      MIT License
      •0•0•1•0•Updated Jun 5, 2025Jun 5, 2025

    • ExpansionHunter

      Public
      A tool for estimating repeat sizes
      C++
      •
      Other
      •70•0•0•0•Updated Dec 11, 2024Dec 11, 2024

    • pipeline-call-gSNP

      Public
      Nextflow pipeline to call germline short variants using GATK
      Nextflow
      •
      GNU General Public License v2.0
      •2•0•0•0•Updated Nov 2, 2024Nov 2, 2024

    • samples_archive

      Public
      Archive with samples data available and doctor information
      R
      •0•0•0•0•Updated Oct 21, 2024Oct 21, 2024

    • uclanelsonlab.github.io

      Public
      Website for Stanley Nelson Laboratory from UCLA at human genetics department
      SCSS
      •
      MIT License
      •0•0•0•0•Updated Oct 10, 2024Oct 10, 2024

    • pipeline-call-gSV

      Public
      Nextflow pipeline to call germline structural variants and copy number variants using DELLY and Manta
      Nextflow
      •
      GNU General Public License v2.0
      •2•0•0•0•Updated May 21, 2024May 21, 2024

    • pipeline-align-DNA

      Public
      Nextflow pipeline to align paired DNA FASTQs and sort, mark duplicates, and index resulting alignment
      Nextflow
      •
      GNU General Public License v2.0
      •2•0•0•0•Updated May 21, 2024May 21, 2024

    • pipeline-recalibrate-BAM

      Public
      Nextflow pipeline to perform Indel Realignment and Base Quality Score Recalibration
      Nextflow
      •
      GNU General Public License v2.0
      •2•0•0•0•Updated May 21, 2024May 21, 2024
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