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    136 repositories

    • melanoma-reanalysis

      Public
      Online Materials: Somatic Mutations, Neoepitope Homology and Inflammation in Melanomas Treated with CTLA-4 Blockade
      7•4•0•0•Updated Mar 22, 2026Mar 22, 2026

    • guacamole

      Public
      Spark-based variant calling, with experimental support for multi-sample somatic calling (including RNA) and local assembly
      Scala
      •
      Apache License 2.0
      •21•85•42•1•Updated Mar 22, 2026Mar 22, 2026

    • SmartCount

      Public
      Repository for collaboration on Celldom computer vision solutions
      Jupyter Notebook
      •
      Apache License 2.0
      •0•2•17•1•Updated Aug 2, 2024Aug 2, 2024

    • ppx_deriving_cmdliner

      Public
      Ppx_deriving plugin for generating command line interfaces from types (Cmdliner.Term.t)
      cliocamlppx
      cliocamlppxcommand-line-parserppx-extension
      OCaml
      •
      Apache License 2.0
      •12•98•12•1•Updated Sep 12, 2023Sep 12, 2023

    • vcf-annotate-polyphen

      Public
      A tool to annotate human VCF files with PolyPhen2 effect measures
      Python
      •
      Apache License 2.0
      •6•10•2•3•Updated Dec 26, 2022Dec 26, 2022

    • flusso

      Public
      FCS (Flow Cytometry Standard) parser and utility
      JavaScript
      •
      Apache License 2.0
      •0•2•3•7•Updated Dec 9, 2022Dec 9, 2022

    • t-cell-relation-extraction

      Public
      Literature mining for T cell relations
      Jupyter Notebook
      •5•23•7•5•Updated Aug 5, 2022Aug 5, 2022

    • cytokit

      Public
      Microscopy Image Cytometry Toolkit
      Jupyter Notebook
      •
      Apache License 2.0
      •18•115•11•4•Updated Jul 15, 2022Jul 15, 2022

    • flowdec

      Public
      TensorFlow Deconvolution for Microscopy Data
      Jupyter Notebook
      •
      Apache License 2.0
      •25•91•9•2•Updated Apr 29, 2022Apr 29, 2022

    • genspio

      Public
      Generate Shell Phrases In OCaml
      shellocamledsl
      shellocamledslposixhacktoberfest
      OCaml
      •
      Apache License 2.0
      •3•47•16•0•Updated Dec 15, 2021Dec 15, 2021

    • tcr-transfer

      Public
      Explore an alternative way to clone TILs by first single-cell TCR-seq'ing them and then transforming non-exhausted T cells with these TIL TCRs
      HTML
      •
      Apache License 2.0
      •0•0•6•1•Updated Nov 30, 2021Nov 30, 2021

    • biokepi

      Public
      Bioinformatics Ketrew Pipelines
      ocamlbioinformatics-pipelineketrew
      ocamlbioinformatics-pipelineketrewbioinformatics-ketrew-pipelines
      OCaml
      •
      Apache License 2.0
      •4•28•85•1•Updated Nov 14, 2021Nov 14, 2021

    • pileup.js

      Public
      Interactive in-browser track viewer
      JavaScript
      •
      Apache License 2.0
      •62•280•79•4•Updated Oct 26, 2021Oct 26, 2021

    • slim

      Public
      Node server that listens to Spark events, aggregates statistics, and writes them to Mongo
      JavaScript
      •
      Apache License 2.0
      •5•10•9•0•Updated Apr 6, 2021Apr 6, 2021

    • spark-json-relay

      Public
      SparkListener that converts SparkListenerEvents to JSON and forwards them to an external service via RPC.
      Scala
      •
      Apache License 2.0
      •11•17•4•0•Updated Apr 6, 2021Apr 6, 2021

    • spree

      Public
      Live-updating Spark UI built with Meteor
      JavaScript
      •
      Apache License 2.0
      •29•190•22•1•Updated Apr 6, 2021Apr 6, 2021

    • sbt-parent

      Public
      SBT plugins for publishing to Maven Central, shading and managing dependencies, reporting to Coveralls from TravisCI, and more
      Scala
      •
      Apache License 2.0
      •3•14•2•1•Updated Nov 13, 2020Nov 13, 2020

    • survivalstan

      Public
      Library of Stan Models for Survival Analysis
      Jupyter Notebook
      •
      Apache License 2.0
      •22•123•22•1•Updated Jul 15, 2020Jul 15, 2020

    • spheroid

      Public
      Training data, models, and analysis for 3D culture cytotoxicity assays with microscopy
      Jupyter Notebook
      •
      Apache License 2.0
      •0•0•0•0•Updated Nov 13, 2019Nov 13, 2019

    • prohlatype

      Public
      Probabilistic HLA typing
      OCaml
      •
      Apache License 2.0
      •4•35•12•0•Updated Aug 31, 2019Aug 31, 2019

    • awesome-clonality

      Public
      A curated list of awesome clonality and tumor heterogeneity resources
      Apache License 2.0
      •6•15•1•0•Updated Jun 25, 2019Jun 25, 2019

    • t-cell-activation

      Public
      Modeling bead based T cell activation to optimize ex vivo culturing conditions
      Jupyter Notebook
      •
      Apache License 2.0
      •1•0•0•0•Updated May 13, 2019May 13, 2019

    • t-cell-electroporation

      Public
      Code/Data repository for "Electroporation characteristics of human primary T cells"
      Jupyter Notebook
      •
      Apache License 2.0
      •0•1•2•0•Updated Apr 20, 2019Apr 20, 2019

    • dask-distributed-on-kubernetes

      Public
      Deploy dask-distributed on google container engine using kubernetes
      Jupyter Notebook
      •
      Apache License 2.0
      •6•40•0•1•Updated Apr 15, 2019Apr 15, 2019

    • math-utils

      Public
      Math and statistics utilities
      Scala
      •
      Apache License 2.0
      •1•7•0•0•Updated Feb 11, 2019Feb 11, 2019

    • pageant

      Public
      Parallel Genomic Analysis Toolkit
      4•14•6•0•Updated Feb 11, 2019Feb 11, 2019

    • flowrepository-metadata-db

      Public
      R
      •
      Apache License 2.0
      •0•0•0•0•Updated Jan 28, 2019Jan 28, 2019

    • stancache

      Public
      Filecache for stan models
      reproducible-researchfilecachemcmc
      reproducible-researchfilecachemcmcstan-model
      Python
      •
      Apache License 2.0
      •1•1•4•0•Updated Jan 16, 2019Jan 16, 2019

    • magic-rdds

      Public
      Miscellaneous functionality for manipulating Apache Spark RDDs.
      Scala
      •5•22•1•0•Updated Dec 29, 2018Dec 29, 2018

    • spark-util

      Public
      low-level helpers for Apache Spark libraries and tests
      scalasparkhadoop
      scalasparkhadoopkryo
      Scala
      •
      Apache License 2.0
      •7•16•1•0•Updated Dec 29, 2018Dec 29, 2018
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