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    20 repositories

    • CeNGEN_integrated_analysis_2024

      Public
      Github repo for the 2024 CeNGEN manuscript detailing our work analyzing gene expression data from FACS sorted C. elegans neurons, integrating data from both bulk and single cell RNA-seq methods
      transcriptomicseleganstranscriptomics-data-integration
      R
      •
      MIT License
      •0•0•0•0•Updated Jul 14, 2025Jul 14, 2025

    • CengenApp

      Public
      CSS
      •1•4•2•0•Updated Jun 6, 2025Jun 6, 2025

    • regression_exon_skipping

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Feb 13, 2025Feb 13, 2025

    • suppa_events

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Feb 6, 2025Feb 6, 2025

    • stringtie_quantif

      Public
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 23, 2025Jan 23, 2025

    • quantif_exon_skipping

      Public
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • reanalysis_tissue

      Public
      Shell
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • isoform_compare

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • das_by_neuron

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • splicing_browser

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • novel_junctions

      Public
      HTML
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Nov 5, 2024Nov 5, 2024

    • bulk_align

      Public
      Alignment pipeline
      Nextflow
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • majiq

      Public
      R
      •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

    • cnt_unc40_dfct

      Public
      R
      •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

    • projectNPN

      Public
      projection and reverse transformation for nonparanormal and Zscore transformations
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Mar 28, 2024Mar 28, 2024

    • CeNGEN_integrated_analysis_biorxiv_code

      Public
      code used analyzing data for the April 2022 CeNGEN biorxiv paper
      R
      •
      MIT License
      •0•0•0•0•Updated Apr 8, 2022Apr 8, 2022

    • connectivity_analysis

      Public
      Hypothesis testing the genetic basis of the connectome
      MATLAB
      •
      MIT License
      •0•0•0•0•Updated Oct 1, 2021Oct 1, 2021

    • Thresholding_sc

      Public
      Selecting a threshold for calling gene expression in single-cell data
      R
      •0•1•0•0•Updated Dec 17, 2020Dec 17, 2020

    • splicing

      Public
      Splicing analysis with SplAdder
      R
      •0•0•0•0•Updated Dec 16, 2020Dec 16, 2020

    • Initial_single_cell_analysis

      Public
      Cell calling and background correction on individual single-cell experiments
      R
      •0•0•0•0•Updated Dec 16, 2020Dec 16, 2020