Issues

• Error running multi-thread - ConfigParser::read() Failed to open configuration file: element.ini

  pFindStudio/pLink3#46 · Filter by author DennisDannecker opened on Aug 26, 2026
  1

• "False positives remaining in final output despite FDR filtering

  pFindStudio/pLink3#45 · Filter by author nedaha2010-ui opened on Aug 7, 2026
  6

• Higher number of crosslink peptides with lower FDR

  pFindStudio/pLink3#44 · Filter by author nedaha2010-ui opened on Aug 2, 2026
  3

• Flagged by antivirus as a malware

  antivirus-false-positives
  pFindStudio/pLink3#43 · Filter by author aditya-milkyway opened on Jul 26, 2026
  1

• Combining pLink3 results from multiple runs split from one crosslinking dataset — FDR strategy

  pFindStudio/pLink3#42 · Filter by author dyadav9090 opened on Jul 16, 2026
  1

• How long does plink take to provide the report for one set of raw data file.

  pFindStudio/pLink3#41 · Filter by author nedaha2010-ui opened on Jul 9, 2026
  6

• I am getting this error when trying to run my data

  pFindStudio/pLink3#40 · Filter by author nedaha2010-ui opened on Jul 8, 2026
  9

• RerankOut.exe interaction with antivirus

  antivirus-false-positives
  pFindStudio/pLink3#39 · Filter by author Arthfael opened on Jun 16, 2026
  1

• Failed to execute script 'pParse2Plus' due to unhandled exception: KeyError in mgf_file.write_mgf_from_ms2_mp

  pFindStudio/pLink3#38 · Filter by author MichelDierckx opened on Jun 1, 2026
  1

• Enzymatic digestion not listed in the drop-down menu

  documentation
  pFindStudio/pLink3#37 · Filter by author leokral opened on Apr 19, 2026
  1

• Stopped suddenly

  pFindStudio/pLink3#36 · Filter by author drsghosh01-cpu opened on Apr 17, 2026
  1

• FDR Computation

  pFindStudio/pLink3#34 · Filter by author lutfia95 opened on Feb 10, 2026
  1

• MaxScore in pLink

  pFindStudio/pLink3#33 · Filter by author ChrisTaylor-MAP-LAB opened on Jan 8, 2026
  1

• ETHCDTOF.mgf": "mgf" not found frag_type and analyzer_type "ETHCDTOF

  pFindStudio/pLink3#32 · Filter by author pl572 opened on Jan 6, 2026

• Help with "re-creating" crosslink results

  pFindStudio/pLink3#31 · Filter by author amaralbc opened on Dec 23, 2025
  1

• [PYI-9100:ERROR] Failed to execute script 'MultiProcess' due to unhandled exception

  pFindStudio/pLink3#30 · Filter by author alice01925a opened on Nov 19, 2025

• [PYI-28260:ERROR] Failed to execute script 'MultiProcess' due to unhandled exception!

  pFindStudio/pLink3#29 · Filter by author DennisDannecker opened on Oct 19, 2025
  2

• Immediate Crash of pLabel

  pFindStudio/pLink3#28 · Filter by author ChrisTaylor-MAP-LAB opened on Oct 2, 2025
  3

• “Alpha_Matched” and “Beta_Matched”

  pFindStudio/pLink3#26 · Filter by author KellyM0 opened on Sep 17, 2025
  1

• Analysis for SDA crosslinking not running

  pFindStudio/pLink3#25 · Filter by author ecirri opened on Aug 12, 2025
  1

• Failed to execute script 'MultiProcess' due to unhandled exception

  pFindStudio/pLink3#24 · Filter by author shanshan199205 opened on Jul 14, 2025
  1

• HCDFT.pf2 file not found

  documentation
  pFindStudio/pLink3#23 · Filter by author yingli110110 opened on Jun 18, 2025
  2

• pLabel annotated spectra files are not exporting

  pFindStudio/pLink3#22 · Filter by author audrizzle opened on Jun 18, 2025

• default dtype

  pFindStudio/pLink3#21 · Filter by author yingli110110 opened on Jun 17, 2025
  1

• chymotrypsin digestion

  documentation
  pFindStudio/pLink3#20 · Filter by author yingli110110 opened on Jun 17, 2025
  2