Repositories list

• YangLab.github.io

  Public
  CSS

  •00 forks in YangLab/YangLab.github.io•00 stars in YangLab/YangLab.github.io•00 issues in YangLab/YangLab.github.io•00 pull requests in YangLab/YangLab.github.io•Updated Apr 15, 2026Apr 15, 2026

• SCAPTURE-v2

  Public
  species-specific SCAPTURE v2 pipeline for profiling PASs in single-cell samples of seven species

  Shell

  •00 forks in YangLab/SCAPTURE-v2•11 star in YangLab/SCAPTURE-v2•00 issues in YangLab/SCAPTURE-v2•00 pull requests in YangLab/SCAPTURE-v2•Updated Sep 24, 2025Sep 24, 2025

• RADAR

  Public
  RADAR is devised to detect and visualize all possible twelve-types of RNA editing events from RNA-seq datasets.

  Perl

  •

  GNU General Public License v3.0

  •88 forks in YangLab/RADAR•2020 stars in YangLab/RADAR•33 issues in YangLab/RADAR•00 pull requests in YangLab/RADAR•Updated Sep 2, 2025Sep 2, 2025

• Pre-rRNA-spatial-distribution-and-functional-organisation-of-the-nucleolus

  Public
  R

  •00 forks in YangLab/Pre-rRNA-spatial-distribution-and-functional-organisation-of-the-nucleolus•00 stars in YangLab/Pre-rRNA-spatial-distribution-and-functional-organisation-of-the-nucleolus•00 issues in YangLab/Pre-rRNA-spatial-distribution-and-functional-organisation-of-the-nucleolus•00 pull requests in YangLab/Pre-rRNA-spatial-distribution-and-functional-organisation-of-the-nucleolus•Updated Jul 8, 2025Jul 8, 2025

• eTALED_computational_analysis

  Public
  Jupyter Notebook

  •

  MIT License

  •00 forks in YangLab/eTALED_computational_analysis•00 stars in YangLab/eTALED_computational_analysis•00 issues in YangLab/eTALED_computational_analysis•00 pull requests in YangLab/eTALED_computational_analysis•Updated Feb 22, 2025Feb 22, 2025

• RtABE_computational_analysis

  Public
  Relevant code for analyzing the efficiency and off-target effects of RtABE.

  Jupyter Notebook

  •

  MIT License

  •00 forks in YangLab/RtABE_computational_analysis•00 stars in YangLab/RtABE_computational_analysis•00 issues in YangLab/RtABE_computational_analysis•00 pull requests in YangLab/RtABE_computational_analysis•Updated Feb 7, 2025Feb 7, 2025

• CIRCexplorer2

  Public
  circular RNA analysis toolset

  circrna

  circrna

  Python

  •

  Other

  •4848 forks in YangLab/CIRCexplorer2•9191 stars in YangLab/CIRCexplorer2•1919 issues in YangLab/CIRCexplorer2•00 pull requests in YangLab/CIRCexplorer2•Updated Sep 8, 2024Sep 8, 2024

• DEMINING

  Public
  DEMINING: a stepwise computational framework to directly detect expressed DNA and RNA mutations in RNA deep sequencing data (DEMINING).

  Shell

  •44 forks in YangLab/DEMINING•1111 stars in YangLab/DEMINING•66 issues in YangLab/DEMINING•00 pull requests in YangLab/DEMINING•Updated Jul 31, 2024Jul 31, 2024

• CIRCshapemapper

  Public
  Python

  •22 forks in YangLab/CIRCshapemapper•33 stars in YangLab/CIRCshapemapper•00 issues in YangLab/CIRCshapemapper•00 pull requests in YangLab/CIRCshapemapper•Updated Jan 19, 2024Jan 19, 2024

• SCAPTURE

  Public
  Shell

  •

  Other

  •66 forks in YangLab/SCAPTURE•2121 stars in YangLab/SCAPTURE•99 issues in YangLab/SCAPTURE•00 pull requests in YangLab/SCAPTURE•Updated Jan 9, 2024Jan 9, 2024

• Epitranscriptomic-maps-of-5-methylcytosine

  Public
  This is the bioinformatical analysis pipline associated with "Epitranscriptomic maps of 5-methylcytosine reveal substrate diversity of NSUN methyltransferases a…

  Shell

  •00 forks in YangLab/Epitranscriptomic-maps-of-5-methylcytosine•11 star in YangLab/Epitranscriptomic-maps-of-5-methylcytosine•00 issues in YangLab/Epitranscriptomic-maps-of-5-methylcytosine•00 pull requests in YangLab/Epitranscriptomic-maps-of-5-methylcytosine•Updated Dec 29, 2023Dec 29, 2023

• CFBI

  Public
  CFBI is custom Perl and Shell scripts for base substitution and indel frequencies calculation.

  Perl

  •

  MIT License

  •22 forks in YangLab/CFBI•44 stars in YangLab/CFBI•00 issues in YangLab/CFBI•00 pull requests in YangLab/CFBI•Updated Oct 8, 2023Oct 8, 2023

• BEIDOU

  Public
  Base/Prime Editor Induced DNA Off-target site identification Unified toolkit

  Shell

  •22 forks in YangLab/BEIDOU•66 stars in YangLab/BEIDOU•00 issues in YangLab/BEIDOU•00 pull requests in YangLab/BEIDOU•Updated Oct 8, 2023Oct 8, 2023

• BEable_circRNA_methods

  Public
  Python

  •

  GNU General Public License v3.0

  •00 forks in YangLab/BEable_circRNA_methods•00 stars in YangLab/BEable_circRNA_methods•00 issues in YangLab/BEable_circRNA_methods•00 pull requests in YangLab/BEable_circRNA_methods•Updated May 31, 2023May 31, 2023

• RNAlight

  Public
  a machine learning model to identify nucleotide features determining RNA subcellular localization

  Jupyter Notebook

  •

  MIT License

  •22 forks in YangLab/RNAlight•1313 stars in YangLab/RNAlight•00 issues in YangLab/RNAlight•00 pull requests in YangLab/RNAlight•Updated Mar 11, 2023Mar 11, 2023

• Nucleolar-URB1-ensures-3-ETS-rRNA-removal-to-prevent-exosome--surveillance

  Public
  ImageJ Macro

  •00 forks in YangLab/Nucleolar-URB1-ensures-3-ETS-rRNA-removal-to-prevent-exosome--surveillance•00 stars in YangLab/Nucleolar-URB1-ensures-3-ETS-rRNA-removal-to-prevent-exosome--surveillance•00 issues in YangLab/Nucleolar-URB1-ensures-3-ETS-rRNA-removal-to-prevent-exosome--surveillance•00 pull requests in YangLab/Nucleolar-URB1-ensures-3-ETS-rRNA-removal-to-prevent-exosome--surveillance•Updated Dec 27, 2022Dec 27, 2022

• CDCscreen

  Public
  Source code for the computational analysis of functional circular RNAs screening using the CRISPR-Cas13 system

  Shell

  •33 forks in YangLab/CDCscreen•77 stars in YangLab/CDCscreen•00 issues in YangLab/CDCscreen•00 pull requests in YangLab/CDCscreen•Updated Mar 23, 2022Mar 23, 2022

• CLEAR

  Public
  direct comparison of circular and linear RNA expression

  Python

  •1111 forks in YangLab/CLEAR•2424 stars in YangLab/CLEAR•1212 issues in YangLab/CLEAR•00 pull requests in YangLab/CLEAR•Updated Jan 17, 2021Jan 17, 2021

• TERate

  Public
  TERate is a computational pipeline to measure transcription elongation rates (TERs) with 4sUDRB-Seq.

  Shell

  •

  MIT License

  •11 fork in YangLab/TERate•55 stars in YangLab/TERate•11 issue in YangLab/TERate•00 pull requests in YangLab/TERate•Updated Dec 3, 2020Dec 3, 2020

• bsRNA-seq-m5C

  Public
  Pipeline for m5C calling.

  Perl

  •00 forks in YangLab/bsRNA-seq-m5C•77 stars in YangLab/bsRNA-seq-m5C•00 issues in YangLab/bsRNA-seq-m5C•00 pull requests in YangLab/bsRNA-seq-m5C•Updated Apr 16, 2020Apr 16, 2020

• CIRCfinder

  Public
  A pipeline to map junction reads for circular intronic RNAs (ciRNAs)

  circrna

  circrna

  Python

  •

  MIT License

  •77 forks in YangLab/CIRCfinder•55 stars in YangLab/CIRCfinder•00 issues in YangLab/CIRCfinder•00 pull requests in YangLab/CIRCfinder•Updated Dec 4, 2019Dec 4, 2019

• CIRCexplorer

  Public
  A combined strategy to identify circular RNAs (circRNAs and ciRNAs) (Zhang et al., Complementary Sequence-Mediated Exon Circularization, Cell (2014), 159:134-14…

  circrna

  circrna

  Python

  •

  Other

  •2323 forks in YangLab/CIRCexplorer•6262 stars in YangLab/CIRCexplorer•22 issues in YangLab/CIRCexplorer•00 pull requests in YangLab/CIRCexplorer•Updated Jun 1, 2019Jun 1, 2019

• bamTobw

  Public
  Convert BAM files to bigWig files with a simple command

  Shell

  •

  MIT License

  •1010 forks in YangLab/bamTobw•1919 stars in YangLab/bamTobw•00 issues in YangLab/bamTobw•00 pull requests in YangLab/bamTobw•Updated Nov 30, 2018Nov 30, 2018

• CIRCpseudo

  Public
  Pipeline for circRNA-derived pseudogenes

  Perl

  •

  Other

  •22 forks in YangLab/CIRCpseudo•22 stars in YangLab/CIRCpseudo•00 issues in YangLab/CIRCpseudo•00 pull requests in YangLab/CIRCpseudo•Updated Apr 26, 2017Apr 26, 2017

• CSI

  Public
  Complementary Sequence Index (CSI)

  Python

  •

  Other

  •33 forks in YangLab/CSI•66 stars in YangLab/CSI•11 issue in YangLab/CSI•00 pull requests in YangLab/CSI•Updated Dec 12, 2016Dec 12, 2016