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@compbiomed Section of Computational Biomedicine

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    18 repositories

    • singleCellTK

      Public
      Interactively analyze single cell genomic data
      R
      •
      Other
      •78•179•12•1•Updated Oct 28, 2024Oct 28, 2024

    • gsea-cli-scripts

      Public
      Scripts for running GSEA at the command line
      R
      •2•0•0•0•Updated Aug 21, 2024Aug 21, 2024

    • RNA_Seq

      Public
      Nextflow pipeline for preprocessing RNA sequencing data.
      Nextflow
      •5•5•1•1•Updated May 16, 2024May 16, 2024

    • singleCellTKPlus

      Public
      Includes extra tools in the singleCellTK framework that are not available in standard repositories
      R
      •
      Other
      •1•0•0•1•Updated Jul 5, 2023Jul 5, 2023

    • genome-reference-scripts

      Public
      Scripts for creating genome references (FASTA, STAR, etc.)
      Shell
      •0•1•2•0•Updated May 20, 2023May 20, 2023

    • data-transfer-scripts

      Public
      Scripts for facilitating or carrying out data transfers
      Shell
      •0•0•0•0•Updated Nov 12, 2022Nov 12, 2022

    • basespace-cli-scripts

      Public
      Bash wrapper scripts for working with the BaseSpace command-line interface (CLI)
      Shell
      •0•1•0•0•Updated Oct 23, 2021Oct 23, 2021

    • microscopy-image-scripts

      Public
      Scripts for working with microscopy image files (SVS, etc.)
      Shell
      •0•0•0•0•Updated Aug 4, 2021Aug 4, 2021

    • sctk-kubernetes

      Public
      Dockerfile
      •0•0•0•0•Updated Oct 9, 2020Oct 9, 2020

    • model-selection

      Public
      R
      •0•0•0•0•Updated Aug 13, 2019Aug 13, 2019

    • scruff

      Public
      Single Cell RNA-seq UMI Filtering Facilitator
      bioinformaticsscrna-sequmisingle-cell
      R
      •
      Other
      •1•1•0•0•Updated May 3, 2019May 3, 2019

    • celda

      Public
      Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data
      R
      •
      MIT License
      •14•48•5•0•Updated May 3, 2019May 3, 2019

    • enrichR

      Public
      A hacky little interface to call the Enrichr functional enrichment tool from R.
      R
      •
      MIT License
      •9•12•5•0•Updated Dec 13, 2018Dec 13, 2018

    • celda_tutorials

      Public
      Home of various tutorials and documentation for celda
      MIT License
      •0•0•0•0•Updated Sep 6, 2018Sep 6, 2018

    • TBP

      Public
      1•0•0•0•Updated Apr 30, 2018Apr 30, 2018

    • tableONE

      Public
      A simple package for making "Table One" study population tables
      R
      •
      MIT License
      •3•0•0•0•Updated Oct 26, 2016Oct 26, 2016

    • sourceDir

      Public
      R
      •0•0•0•0•Updated Mar 8, 2016Mar 8, 2016

    • beatmap

      Public
      This heatmap *beats* the one you're using by adding comfortably spaced color bars and a color key.
      0•1•0•0•Updated Mar 8, 2016Mar 8, 2016