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    87 repositories

    • trace-record-py

      Public
      Python implementation of lightweight trace recorder for LangGraph
      Python
      •0•0•0•0•Updated May 5, 2026May 5, 2026

    • bbenson_P640_P639_CHEETAH_Analysis

      Public
      0•0•0•0•Updated May 4, 2026May 4, 2026

    • CD8_IEL_SFB_2026

      Public
      Code for analyses of bulk RNAseq and 10x single-cell data used in Olsen et al. 2026, "Coincident epithelial signals coordinate commensal-specific CD8αβ⁺ T cell …
      0•0•0•0•Updated Apr 28, 2026Apr 28, 2026

    • VM_brainGutCoaching

      Public
      Virginia Mason Gut-Brain Coaching Class. Investigator: Molly Anderson, DO, PI: Justin Brandler, MD.
      R
      •0•0•0•0•Updated Apr 18, 2026Apr 18, 2026

    • P697_TEAseq_T1D_low_dose_IL2

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Apr 18, 2026Apr 18, 2026

    • kubespray

      Public
      Deploy a Production Ready Kubernetes Cluster
      Jinja
      •
      Apache License 2.0
      •6.9k•0•0•1•Updated Apr 17, 2026Apr 17, 2026

    • miscHelpers

      Public
      Miscellaneous helper functions for common tasks. A hodgepodge of stuff that doesn't fit into other packages.
      R
      •0•0•0•0•Updated Apr 17, 2026Apr 17, 2026

    • Biomni

      Public
      Biomni: a general-purpose biomedical AI agent
      Python
      •
      Apache License 2.0
      •568•0•0•0•Updated Apr 8, 2026Apr 8, 2026

    • P714_1_analysis_pure_server

      Public
      PANDA single cell RNA-seq data
      0•0•0•0•Updated Apr 6, 2026Apr 6, 2026

    • Safety-of-tolerizing-antigen-plasmid-in-Type-1-Diabetes

      Public
      Phase I clinical trial of islet antigen-specific plasmid co-expressing tolerogenic proteins demonstrates safety in adults with Type 1 Diabetes.
      R
      •0•0•0•0•Updated Mar 25, 2026Mar 25, 2026

    • PANDA_batch3_analysis_pure_server

      Public
      PANDA project
      MIT License
      •0•0•0•0•Updated Mar 23, 2026Mar 23, 2026

    • terraform-provider-flash

      Public
      Terraform provider plugin for Pure Storage FlashArray
      Go
      •
      Apache License 2.0
      •11•0•0•1•Updated Mar 19, 2026Mar 19, 2026

    • archr

      Public
      Containerized ArchR package
      Dockerfile
      •0•0•0•0•Updated Mar 18, 2026Mar 18, 2026

    • coder-icons

      Public
      Public icons coder uses
      0•0•0•0•Updated Mar 18, 2026Mar 18, 2026

    • B_cell_av_integrin_lung_2026

      Public
      Code for analyses of 10x single-cell data used in Montiel-Armendariz et al. 2026, "B cell αv integrin regulates tissue specialization and clonal expansion of lu…
      Shell
      •0•0•0•0•Updated Mar 4, 2026Mar 4, 2026

    • jamf

      Public
      For scripts deployed via Jamf to Mac devices
      Shell
      •0•0•0•0•Updated Mar 4, 2026Mar 4, 2026

    • P622_analysis_pure_server

      Public
      Single cell data using 10X Flex V2 for nasal lavage samples from CHEETAH project
      GNU General Public License v3.0
      •0•0•0•0•Updated Mar 4, 2026Mar 4, 2026

    • snakemake-executor-plugin-kubernetes

      Public
      A snakemake executor plugin for submission of jobs to Kubernetes
      Python
      •
      MIT License
      •14•0•0•0•Updated Mar 3, 2026Mar 3, 2026

    • scDEED

      Public
      Fork of scDEED in order to maintain compatibility with Seurat updates
      R
      •
      MIT License
      •7•0•0•0•Updated Feb 26, 2026Feb 26, 2026

    • briDiscovr

      Public
      Distribution analysis across clusters of a parent population overlaid with a rare subpopulation (DISCOV-R)
      R
      •
      Other
      •0•1•1•1•Updated Feb 25, 2026Feb 25, 2026

    • containers

      Public
      Bitnami container images
      Shell
      •
      Other
      •6.8k•0•0•0•Updated Feb 24, 2026Feb 24, 2026

    • shared-workflows

      Public
      For shared Github Action workflows
      0•0•0•0•Updated Feb 13, 2026Feb 13, 2026

    • P597-6_Elucidating_the_Function_of_anti-avb6_autoantibodies_in_UC

      Public
      0•0•0•0•Updated Feb 2, 2026Feb 2, 2026

    • Bottorff_CD127_2026

      Public
      This repository houses code used to analyze and generate figures from all data presented in Bottorff et al., 2026.
      Shell
      •0•0•0•0•Updated Feb 2, 2026Feb 2, 2026

    • tcrGraph

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•2•0•Updated Dec 23, 2025Dec 23, 2025

    • P589-1_Cerosaletti_Chen_foreign_autoreactive_CD4_Tcell_10X

      Public
      P589-1, a 10X GEM-X XLEAP investigation of CD4 Tcells in T1D and HC subjects with a CITEseq panel
      HTML
      •0•0•0•1•Updated Oct 24, 2025Oct 24, 2025

    • RNAseQC

      Public
      Tools for conducting QC on RNAseq data
      R
      •4•3•0•0•Updated Oct 21, 2025Oct 21, 2025

    • Cerosaletti_Self-reactive_Tcells

      Public
      Code for the study entitled "Self-reactive human conventional and regulatory T cells are clonally expanded but have distinct TCR repertoires" by Thomas
      MIT License
      •1•0•0•0•Updated Sep 25, 2025Sep 25, 2025

    • geneSetTools

      Public
      Accessory tools to facilitate gene set analyses of RNAseq data.
      R
      •0•0•0•0•Updated Sep 17, 2025Sep 17, 2025

    • NCI_irae_cytof

      Public
      0•0•0•0•Updated Sep 9, 2025Sep 9, 2025
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