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    • Analysis for HOPE cohort
      HTML
      1300Updated Oct 28, 2024Oct 28, 2024
    • Jupyter Notebook
      Apache License 2.0
      0000Updated Oct 28, 2024Oct 28, 2024
    • A Terraform module to create anAmazon Web Services (AWS) Virtual Private Cloud (VPC).
      HCL
      0001Updated Oct 24, 2024Oct 24, 2024
    • the command line tool code base for d3b data file foundation
      Python
      Apache License 2.0
      0001Updated Oct 23, 2024Oct 23, 2024
    • Preprocessing and automatic tumor segmentation for pediatric brain tumor subjects
      Other
      1201Updated Oct 15, 2024Oct 15, 2024
    • The analysis repository for the Open Pediatric Cancer Project
      HTML
      Other
      6716232Updated Oct 15, 2024Oct 15, 2024
    • Development repo for LOH
      Python
      Apache License 2.0
      0110Updated Oct 11, 2024Oct 11, 2024
    • R
      Apache License 2.0
      0000Updated Oct 9, 2024Oct 9, 2024
    • In collaboration with the Diskin lab, this repo houses a workflow designed to take in KF annotated vcf files, and further annotate for pathogenicity prediction
      Common Workflow Language
      Apache License 2.0
      0000Updated Oct 8, 2024Oct 8, 2024
    • Flywheel gear that implements HistoQC package
      Python
      0000Updated Oct 7, 2024Oct 7, 2024
    • Flywheel SDK example scripts
      Python
      0000Updated Oct 6, 2024Oct 6, 2024
    • A repository for the Playbook Workflow Builder project.
      TypeScript
      Other
      18002Updated Oct 3, 2024Oct 3, 2024
    • Flywheel gear to implement BraTS 2024 pediatric tumor segmentation model via AWS SageMaker endpoint
      0000Updated Oct 2, 2024Oct 2, 2024
    • Release of pretrained pediatric de-facing model for MRI file de-identification
      Other
      0100Updated Oct 2, 2024Oct 2, 2024
    • pbta-ancestry

      Public archive
      HTML
      BSD 2-Clause "Simplified" License
      1100Updated Oct 2, 2024Oct 2, 2024
    • pbta-tumor-evolution

      Public archive
      HTML
      BSD 2-Clause "Simplified" License
      1062Updated Oct 2, 2024Oct 2, 2024
    • Splicing analysis across the PBTA
      HTML
      1110Updated Oct 1, 2024Oct 1, 2024
    • annoFuse

      Public
      Filter and prioritize fusion calls
      R
      Other
      320110Updated Sep 30, 2024Sep 30, 2024
    • A WIP tool to assist with reading DICOM images from Orthanc, conversion to anonymized NIfTI images, and uploading to Flywheel.
      Python
      Apache License 2.0
      02220Updated Sep 26, 2024Sep 26, 2024
    • RNAseq SNV Calling Workflow (beta). This workflow follows the COV-IRT NASA-developed pipeline, with the exception of joint genotyping-specific params and steps.
      Jupyter Notebook
      Apache License 2.0
      2001Updated Sep 24, 2024Sep 24, 2024
    • All-purpose CLI tool for D3b Center and partner orgs
      Python
      0011Updated Sep 19, 2024Sep 19, 2024
    • Warehousing from flywheel
      Python
      0000Updated Sep 4, 2024Sep 4, 2024
    • bixtools

      Public
      🐳 Dockerfiles for bioinformatics tools
      Dockerfile
      41400Updated Aug 26, 2024Aug 26, 2024
    • routine QC job for data hosted on Flywheel
      Python
      0000Updated Aug 21, 2024Aug 21, 2024
    • R
      Other
      0000Updated Aug 2, 2024Aug 2, 2024
    • Flywheel gear to implement FSL's FAST tool
      Shell
      0000Updated Aug 2, 2024Aug 2, 2024
    • Flywheel gear implementing CaPTk's Preprocessing Z-score Normalization
      Shell
      0000Updated Jul 31, 2024Jul 31, 2024
    • Flywheel gear to create a labeled image from a QuPath GeoJSON
      Python
      0000Updated Jul 31, 2024Jul 31, 2024
    • Flywheel gear for generating pathomic features
      Python
      0000Updated Jul 30, 2024Jul 30, 2024
    • Canine WF development
      Common Workflow Language
      0000Updated Jul 25, 2024Jul 25, 2024