Issues

• Why does my CLIPper installation show an incorrect usage message after installation?

  YeoLab/clipper#124 · Filter by author xiatianjihao opened on Mar 25, 2026
  1

• Potential solution for clipper installation

  YeoLab/clipper#121 · Filter by author jechia opened on Jul 14, 2025
  2

• Issue clipper instalation

  YeoLab/clipper#120 · Filter by author Suasnavas opened on May 30, 2025

• Issue with clipper installation

  YeoLab/clipper#119 · Filter by author elisulvaran opened on Sep 17, 2024
  4

• min_width, max_width not taken into account

  YeoLab/clipper#118 · Filter by author VandaLovejoy opened on Jun 20, 2024

• Clipper does not output anything

  YeoLab/clipper#117 · Filter by author ramirobarrantes opened on May 29, 2024
  1

• invalid contig chr3

  YeoLab/clipper#116 · Filter by author tslzs opened on Jul 18, 2023

• reverse_strand argument for seCLIP peaks?

  YeoLab/clipper#115 · Filter by author arun-krishnaraj opened on Jan 24, 2023

• Problem using Clipper with a cytoplasmic RBP that binds to spliced mRNA

  YeoLab/clipper#113 · Filter by author Braulium opened on Dec 8, 2022

• How to know the peaks called after clipper

  YeoLab/clipper#111 · Filter by author ELMMA-FUNNY opened on Sep 13, 2022
  3

• why poisson_cutoff not actually used in call_peak.py since it is an additional significance filtering based on count

  YeoLab/clipper#110 · Filter by author HUNNNGRY opened on Aug 31, 2022

• A solution to core dumped and/or running too slow

  YeoLab/clipper#109 · Filter by author YichaoOU opened on Aug 18, 2022
  2

• Runtime of CLIPer?

  YeoLab/clipper#107 · Filter by author mhorlacher opened on May 6, 2022
  3

• CLIPper runs forever for empty bam files

  YeoLab/clipper#106 · Filter by author algaebrown opened on May 5, 2022
  

• CLIPper complains file does not exist while it obviously exists

  YeoLab/clipper#105 · Filter by author algaebrown opened on Apr 30, 2022
  2

  

• clipper displays unusual help messages and can't be used

  YeoLab/clipper#103 · Filter by author kerenzhou062 opened on Feb 8, 2022
  11

• Main.py fails to import call_peaks.py, prints usage for peaksmodule.cc instead

  YeoLab/clipper#101 · Filter by author lee-van opened on Jan 7, 2022
  2

• Multiple fragmented peaks where single peak expected

  YeoLab/clipper#98 · Filter by author omarwagih opened on Aug 5, 2021

• error with clipper and scipy version

  YeoLab/clipper#97 · Filter by author byee4 opened on Jun 30, 2021

• Run test ERROR: python -m unittest discover ; The following error is reported. Can the clipper still be used normally

  YeoLab/clipper#94 · Filter by author geng-lee opened on Mar 29, 2021
  3

• Invalid contig error

  YeoLab/clipper#93 · Filter by author jalalsiddiqui opened on Jan 22, 2021
  9

• pip install clipper --user

  YeoLab/clipper#92 · Filter by author jalalsiddiqui opened on Jan 20, 2021
  2

• Having trouble installing clipper

  YeoLab/clipper#91 · Filter by author jalalsiddiqui opened on Jan 19, 2021
  2

• Clipper installation fails

  YeoLab/clipper#90 · Filter by author ekfiagbedzi opened on Nov 22, 2020
  3

• Install Clipper via Conda

  YeoLab/clipper#89 · Filter by author gpratt opened on Nov 10, 2020
  1