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@UCSC-Treehouse

UCSC Treehouse Childhood Cancer Initiative

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  1. mend_qc mend_qc Public

    Count Mapped Exonic Non-Duplicate (MEND) reads in an RNA Seq bam file

    R 4

  2. pipelines pipelines Public

    Makefiles to run dockerized pipelines used in Treehouse on a single sample

    Makefile 3 6

  3. b2f_docker b2f_docker Public

    C++ 2

  4. CARE CARE Public

    Treehouse Comparative Analysis of RNA Expression

    Jupyter Notebook 2

  5. fusion-for-core fusion-for-core Public

    UCSC Treehouse Gene Fusion Analysis Pipeline

    Python 1 9

  6. hub hub Public

    Tooling to spin up and manage jupyter, nbviewer, xena for tertiary analyis

    Python 1 1

Repositories

Showing 10 of 51 repositories
  • multi-compendia-mapping Public Forked from sdadhwa/multi-compendia-mapping
    Python 0 MIT 2 0 0 Updated Mar 16, 2025
  • neuromuscular-disease-sample-analysis Public

    UCSF Dr. Alex Fay's 15 Undiagnosed Pediatric Neuromuscular Diseases (NMDs). RNA sequencing (ribo deplete) had been conducted. Subsequent analysis include outlier analysis, splicing analysis, and junction usage analysis.

    HTML 0 0 2 0 Updated Mar 13, 2025
  • compendium-expression-matrix Public
    Python 0 0 0 0 Updated Mar 7, 2025
  • HCB_lab_notebook Public
    0 0 0 0 Updated Feb 18, 2025
  • CARE_IMPACT_analysis_for_manuscript Public

    Work supporting the manuscript submission effort underway July 2023

    HTML 0 0 5 0 Updated Jan 27, 2025
  • mend_qc Public

    Count Mapped Exonic Non-Duplicate (MEND) reads in an RNA Seq bam file

    R 4 MIT 0 1 2 Updated Jan 13, 2025
  • shell-novice2 Public
    HTML 0 0 0 0 Updated Jan 9, 2025
  • shell-novice Public
    HTML 0 0 0 0 Updated Jan 8, 2025
  • brca-exchange Public Forked from BRCAChallenge/brca-exchange

    Overall management and deployment of the BRCA Exchange web portal and pipeline scripts

    Python 0 33 0 0 Updated Sep 16, 2024
  • ccdi-federation-api Public
    0 0 0 0 Updated May 17, 2024
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