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    12 repositories

    • SCRIN

      Public
      Dissection of context-dependent RNA colocalization landscapes from subcellular spatial transcriptomics data
      Python
      •
      MIT License
      •0•4•0•0•Updated Mar 30, 2026Mar 30, 2026

    • CASREL

      Public
      Cell-specific alternative splicing regulation inference via explainable learning
      Python
      •
      Apache License 2.0
      •0•1•0•0•Updated Mar 26, 2026Mar 26, 2026

    • L1PA

      Public
      LINE1 RNA demethylation sensitizes cancer cells to PARPi through global chromatin remodeling
      GNU General Public License v3.0
      •0•0•0•0•Updated Feb 24, 2026Feb 24, 2026

    • RiboMiner

      Public
      a toolset for mining multi-dimensional features of the translatome with ribosome profiling data
      ribosome-profiling-dataribosome-stalling-eventsmetagene-analysis
      ribosome-profiling-dataribosome-stalling-eventsmetagene-analysisco-translation
      Python
      •
      GNU General Public License v3.0
      •9•19•1•0•Updated Jul 19, 2025Jul 19, 2025

    • xtail

      Public
      Genome-wide assessment of differential translations with ribosome profiling data
      R
      •
      GNU General Public License v3.0
      •21•22•19•1•Updated May 6, 2025May 6, 2025

    • SCASL

      Public
      single-cell clustering based on alternative splicing landscapes
      Python
      •
      Apache License 2.0
      •3•23•10•0•Updated Mar 20, 2024Mar 20, 2024

    • RocA

      Public
      Reanalysis of ribosome profiling datasets reveals a novel function of rocaglamide A in perturbing the dynamics of translation elongation via eIF4A
      ribosome-profilingrocatranslatome
      ribosome-profilingrocatranslatome
      Python
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Dec 28, 2022Dec 28, 2022

    • DeepLinc

      Public
      De novo reconstruction of cell interaction landscapes from single-cell spatial transcriptome data
      Python
      •
      MIT License
      •8•21•5•0•Updated Oct 11, 2022Oct 11, 2022

    • RiboCode

      Public
      release version
      bioinformaticsorfsribosome-profiling
      bioinformaticsorfsribosome-profilingpeptides
      Python
      •
      MIT License
      •16•59•37•0•Updated Jul 29, 2022Jul 29, 2022

    • cscMap

      Public
      cscMap is a bioinformatics pipeline to search for the RNA chimeras resulted from fusions of the transcripts encoded by the two opposite DNA strands.
      Python
      •3•4•4•0•Updated Jun 23, 2021Jun 23, 2021

    • RPF-count-CDS

      Public
      Counting the RPF reads map to CDS region
      Python
      •
      MIT License
      •3•0•0•0•Updated Feb 17, 2020Feb 17, 2020

    • ORFcalling

      Public
      A tutorial review of some methods for ORF calling
      ribocode
      ribocode
      Python
      •
      GNU General Public License v3.0
      •3•4•0•0•Updated Dec 14, 2017Dec 14, 2017
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