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    • R
      0000Updated Jun 17, 2025Jun 17, 2025
    • Significant improvement and extension of bam2bakR
      Python
      3000Updated May 19, 2025May 19, 2025
    • Mitochondrial RNA kinetics
      Jupyter Notebook
      0100Updated Jan 23, 2025Jan 23, 2025
    • rna_flow

      Public
      Jupyter Notebook
      1400Updated Nov 21, 2024Nov 21, 2024
    • Jupyter Notebook
      0000Updated Oct 23, 2024Oct 23, 2024
    • genewalk

      Public
      GeneWalk identifies relevant gene functions for a biological context using network representation learning
      Python
      1713200Updated Aug 1, 2024Aug 1, 2024
    • R
      2300Updated Jul 16, 2024Jul 16, 2024
    • Shell
      0100Updated Nov 14, 2023Nov 14, 2023
    • Jupyter Notebook
      1401Updated May 16, 2023May 16, 2023
    • R
      0000Updated Feb 24, 2023Feb 24, 2023
    • Dynamics of transcription elongation are finely-tuned by dozens of regulatory factors
      Perl
      1000Updated Mar 20, 2022Mar 20, 2022
    • nano-COP

      Public
      Nanopore analysis of CO-transcriptional processing exposes the nascent transcriptome via direct long-read RNA-seq
      Jupyter Notebook
      3800Updated Jan 29, 2021Jan 29, 2021
    • NETseq alignment pipeline as described in Martell et al, Methods in Molecular Biology (in press)
      Shell
      1200Updated Jan 3, 2021Jan 3, 2021
    • FIDDLE

      Public
      functional genomic data integration
      Jupyter Notebook
      21000Updated Sep 22, 2019Sep 22, 2019
    • Python
      2000Updated Aug 29, 2018Aug 29, 2018
    • Python
      1200Updated Aug 15, 2012Aug 15, 2012