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• • RE: [spctools-discuss] Linux version of TPP Eric Deutsch
  • Re: [spctools-discuss] Linux version of TPP Kamal Mandal
  • RE: [spctools-discuss] Linux version of TPP Eric Deutsch
  • Re: [spctools-discuss] Linux version of TPP Kamal Mandal
  • RE: [spctools-discuss] Linux version of TPP Eric Deutsch
  • Re: [spctools-discuss] Linux version of TPP Kamal Mandal
• [spctools-discuss] Simple protXML to tsv converter (Python3) Robert
• [spctools-discuss] MSFragger: peptide prophet extended mass model alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] MSFragger: peptide prophet extended mass model David Shteynberg
  • Re: [spctools-discuss] MSFragger: peptide prophet extended mass model alastair.skeffington via spctools-discuss
• [spctools-discuss] Percolator stopped working using Kojak result files Gabriella Gellen
  • RE: [spctools-discuss] Percolator stopped working using Kojak result files Michael Hoopmann
  • Re: [spctools-discuss] Percolator stopped working using Kojak result files Gabriella Gellen
  • RE: [spctools-discuss] Percolator stopped working using Kojak result files Michael Hoopmann
• [spctools-discuss] Mascot2XML: decoys alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Mascot2XML: decoys David Shteynberg
  • Re: [spctools-discuss] Mascot2XML: decoys alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Mascot2XML: decoys alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Mascot2XML: decoys David Shteynberg
  • Re: [spctools-discuss] Mascot2XML: decoys alastair.skeffington via spctools-discuss
• [spctools-discuss] convert prot.xml to EXCEL with biocontainers/tpp Robert
  • RE: [spctools-discuss] convert prot.xml to EXCEL with biocontainers/tpp Eric Deutsch
  • Re: [spctools-discuss] convert prot.xml to EXCEL with biocontainers/tpp Luis Mendoza
• [spctools-discuss] Problems running xinteract in TPP5.1.0 JeBu42
• [spctools-discuss] Running TPP/Petunia GUI with Docker Robert
  • RE: [spctools-discuss] Running TPP/Petunia GUI with Docker Eric Deutsch
  • Re: [spctools-discuss] Running TPP/Petunia GUI with Docker Robert Winkler
  • Re: [spctools-discuss] Running TPP/Petunia GUI with Docker Darryl Davis
  • RE: [spctools-discuss] Running TPP/Petunia GUI with Docker Eric Deutsch
  • [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Robert
  • [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Robert
  • RE: [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Eric Deutsch
  • Re: [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Robert
  • RE: [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Eric Deutsch
  • Re: [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Robert
  • RE: [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Eric Deutsch
  • Re: [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Robert Winkler
  • RE: [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Eric Deutsch
  • Re: [spctools-discuss] Re: Running TPP/Petunia GUI with Docker Robert
• [spctools-discuss] How to persive the multiple identified phospho peptide on the protein information Syed Azmal Ali
• [spctools-discuss] PeptideProphet Using Decoy Peptides to build the machine learning model but reject for selection davisharif
• [spctools-discuss] novor2xml questions Emma Whittington
• [spctools-discuss] Can't exec "tpp_models.pl" TPP/kojak Alex Zelter
  • Re: [spctools-discuss] Can't exec "tpp_models.pl" TPP/kojak David Shteynberg
  • Re: [spctools-discuss] Can't exec "tpp_models.pl" TPP/kojak Alex Zelter
• [spctools-discuss] Kojak Kamal Mandal
  • RE: [spctools-discuss] Kojak Michael Hoopmann
  • Re: [spctools-discuss] Kojak Kamal Mandal
• [spctools-discuss] Kojak FDR analysis Kamal Mandal
• [spctools-discuss] HELP PLEASE: InterPro .xml results importing into TPP pipeline? Robyn Leigh Smith
  • [spctools-discuss] Re: HELP PLEASE: InterPro .xml results importing into TPP pipeline? alastair.skeffington via spctools-discuss
• [spctools-discuss] InterPro protein.xml file to TPP or ProteomeDiscoverer prot.xml file Robyn Leigh Smith
• [spctools-discuss] LibraPeptideParser double free or corruption (GNU/Linux) - TPP v5.2.0-b1 Jhoira Sakura
• [spctools-discuss] Mapping disulfide bonds using Kojak Eduardo Kitano
• [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity Adam Rabalski
  • Re: [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity David Shteynberg
  • Re: [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity Adam Rabalski
  • Re: [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity Adam Rabalski
  • Re: [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity David Shteynberg
  • Re: [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity Adam Rabalski
  • Re: [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity David Shteynberg
  • Re: [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity Adam Rabalski
  • Re: [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity Adam Rabalski
  • Re: [spctools-discuss] error with html display: XML parsing error: XML or text declaration not at start of entity Adam Rabalski
• [spctools-discuss] Mascot2XML issues alastair.skeffington via spctools-discuss
  • [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] Re: Mascot2XML issues David Shteynberg
  • Re: [spctools-discuss] Re: Mascot2XML issues alastair.skeffington via spctools-discuss
• [spctools-discuss] TPP course Orlando Sep 25-29 Eric Deutsch
• [spctools-discuss] Multi-threaded Protein Prophet Alan Smith
  • [spctools-discuss] Re: Multi-threaded Protein Prophet Adam Rabalski
  • [spctools-discuss] Re: Multi-threaded Protein Prophet Adam Rabalski
• [spctools-discuss] Re: Great peptide-level quant but no protein-level quant for some proteins. [email protected]
• [spctools-discuss] Change default options in peptide prophet/iprophet/protein prophet Joey Davis
• [spctools-discuss] Libra normalization problem Rachel Nadeau
• [spctools-discuss] Tools for search results comparisons alastair.skeffington via spctools-discuss
  • [spctools-discuss] Re: Tools for search results comparisons alastair.skeffington via spctools-discuss
• [spctools-discuss] SpectraST: option to disable adding AAs randomly to shuffled sequence for generating DECOY spectra? Chih-Chiang Tsou
  • [spctools-discuss] Re: SpectraST: option to disable adding AAs randomly to shuffled sequence for generating DECOY spectra? Henry Lam
  • [spctools-discuss] Re: SpectraST: option to disable adding AAs randomly to shuffled sequence for generating DECOY spectra? Chih-Chiang Tsou
  • [spctools-discuss] Re: SpectraST: option to disable adding AAs randomly to shuffled sequence for generating DECOY spectra? Henry Lam
• [spctools-discuss] How to import TSV/txt from PeakView into SpectraST ML
  • [spctools-discuss] Re: How to import TSV/txt from PeakView into SpectraST Henry Lam
• [spctools-discuss] Spectrast unable to differentiate Trimethyl and Acetyl Vidya Venkatraman
• [spctools-discuss] SpectraST deleting unmapped not working as expected -cD RefreshDatabase, -cu refreshDeleteUnmapped and -cd refreshDeleteMultimapped ML
  • [spctools-discuss] Re: SpectraST deleting unmapped not working as expected -cD RefreshDatabase, -cu refreshDeleteUnmapped and -cd refreshDeleteMultimapped Henry Lam
• [spctools-discuss] PepXML Viewer Max
• [spctools-discuss] mascot2xml doesn't recognise semi-lysArginase searches Peter Bell
• [spctools-discuss] Error table question Rachel Nadeau
• [spctools-discuss] Question about Error Table (iProphet) Rachel Nadeau
  • Re: [spctools-discuss] Question about Error Table (iProphet) David Shteynberg
• [spctools-discuss] TPP on linux command line alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] TPP on linux command line David Shteynberg
  • Re: [spctools-discuss] TPP on linux command line alastair.skeffington via spctools-discuss
  • Re: [spctools-discuss] TPP on linux command line Chris Waizenegger
  • Re: [spctools-discuss] TPP on linux command line Luis Mendoza
  • Re: [spctools-discuss] TPP on linux command line Chris Waizenegger
• [spctools-discuss] PTMProphetParser error help! Emma Whittington
  • Re: [spctools-discuss] PTMProphetParser error help! David Shteynberg
  • Re: [spctools-discuss] PTMProphetParser error help! Emma Whittington
  • Re: [spctools-discuss] PTMProphetParser error help! David Shteynberg
  • Re: [spctools-discuss] PTMProphetParser error help! Emma Whittington
• [spctools-discuss] combining multiple iprophet results / Run NSP in iprophet if processing through protein prophet afterwards? pbell . science
  • Re: [spctools-discuss] combining multiple iprophet results / Run NSP in iprophet if processing through protein prophet afterwards? David Shteynberg
  • Re: [spctools-discuss] combining multiple iprophet results / Run NSP in iprophet if processing through protein prophet afterwards? pbell . science
  • Re: [spctools-discuss] combining multiple iprophet results / Run NSP in iprophet if processing through protein prophet afterwards? David Shteynberg
  • Re: [spctools-discuss] combining multiple iprophet results / Run NSP in iprophet if processing through protein prophet afterwards? pbell . science
  • Re: [spctools-discuss] combining multiple iprophet results / Run NSP in iprophet if processing through protein prophet afterwards? David Shteynberg
  • Re: [spctools-discuss] combining multiple iprophet results / Run NSP in iprophet if processing through protein prophet afterwards? pbell . science
• [spctools-discuss] QualScore cannot be found anywhere:( flora . yufang . liu
  • Re: [spctools-discuss] QualScore cannot be found anywhere:( Luis Mendoza
• [spctools-discuss] How to export unassigned mass spectra from Proteome Discoverer 2.0 Jiancheng Ding
  • [spctools-discuss] Re: How to export unassigned mass spectra from Proteome Discoverer 2.0 ahegde
• [spctools-discuss] iProphet for Leucine/isoleucine IDs Chih-Chiang Tsou
  • Re: [spctools-discuss] iProphet for Leucine/isoleucine IDs David Shteynberg
  • Re: [spctools-discuss] iProphet for Leucine/isoleucine IDs Chih-Chiang Tsou
  • Re: [spctools-discuss] iProphet for Leucine/isoleucine IDs David Shteynberg
• [spctools-discuss] Valid combination of multiple samples, fractions and digestions with different enzymes, using prophets pbell . science
  • Re: [spctools-discuss] Valid combination of multiple samples, fractions and digestions with different enzymes, using prophets David Shteynberg
  • Re: [spctools-discuss] Valid combination of multiple samples, fractions and digestions with different enzymes, using prophets pbell . science
  • Re: [spctools-discuss] Valid combination of multiple samples, fractions and digestions with different enzymes, using prophets pbell . science
  • Re: [spctools-discuss] Valid combination of multiple samples, fractions and digestions with different enzymes, using prophets pbell . science
• [spctools-discuss] Peptide prophet - use of decoy database for X! searches? pbell . science
  • Re: [spctools-discuss] Peptide prophet - use of decoy database for X! searches? David Shteynberg
  • Re: [spctools-discuss] Peptide prophet - use of decoy database for X! searches? pbell . science
  • Re: [spctools-discuss] Peptide prophet - use of decoy database for X! searches? David Shteynberg
  • [spctools-discuss] Peptide prophet - use of decoy database for X! searches? Peter Bell
• [spctools-discuss] TPP @ ASMS -- booth #203 + Wednesday Workshop Luis Mendoza
• [spctools-discuss] Convert mgf to mzML/mzXML Panos Ioannidis
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Michael Hoopmann
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Panos Ioannidis
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Michael Hoopmann
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Panos Ioannidis
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Antonio Ortega
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Panos Ioannidis
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Adam Rabalski
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Michael Hoopmann
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Adam Rabalski
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Adam Rabalski
  • [spctools-discuss] Re: Convert mgf to mzML/mzXML Adam Rabalski
  • Re: [spctools-discuss] Re: Convert mgf to mzML/mzXML Chambers, Matthew
• [spctools-discuss] Re: Running database search from commandline Panos Ioannidis
• [spctools-discuss] TPP 5.1.0 installation fails Panos Ioannidis
  • [spctools-discuss] Re: TPP 5.1.0 installation fails Michael Hoopmann
  • [spctools-discuss] Re: TPP 5.1.0 installation fails Panos Ioannidis
  • [spctools-discuss] Re: TPP 5.1.0 installation fails Michael Hoopmann
• [spctools-discuss] TPP unable to complete Analysis using -dDECOY annie . ha
• [spctools-discuss] MsFragger vs Comet David Zhao
  • [spctools-discuss] Re: MsFragger vs Comet Alexey Nesvizhskii
  • [spctools-discuss] Re: MsFragger vs Comet David Zhao
• [spctools-discuss] Using PeptideProphet on SearchGUI output Antonio Ortega
  • [spctools-discuss] Re: Using PeptideProphet on SearchGUI output Antonio Ortega
  • Re: [spctools-discuss] Re: Using PeptideProphet on SearchGUI output David Shteynberg
  • Re: [spctools-discuss] Re: Using PeptideProphet on SearchGUI output David Shteynberg
• [spctools-discuss] General Questions on Protein Quantification with StPeter and coupling to output of SearchGUI Antonio Ortega
  • [spctools-discuss] Re: General Questions on Protein Quantification with StPeter and coupling to output of SearchGUI Michael Hoopmann
  • [spctools-discuss] Re: General Questions on Protein Quantification with StPeter and coupling to output of SearchGUI Antonio Ortega
  • [spctools-discuss] Re: General Questions on Protein Quantification with StPeter and coupling to output of SearchGUI Michael Hoopmann
  • [spctools-discuss] Re: General Questions on Protein Quantification with StPeter and coupling to output of SearchGUI Antonio Ortega
  • [spctools-discuss] Re: General Questions on Protein Quantification with StPeter and coupling to output of SearchGUI Michael Hoopmann
  • [spctools-discuss] Re: General Questions on Protein Quantification with StPeter and coupling to output of SearchGUI Antonio Ortega
• [spctools-discuss] analysing PTMprophet output Emma Whittington
  • [spctools-discuss] Re: analysing PTMprophet output Adam Rabalski
• [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities Piero Giansanti
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities David Shteynberg
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities Piero Giansanti
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities David Shteynberg
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities Piero Giansanti
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities David Shteynberg
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities Alexey Nesvizhskii
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities Piero Giansanti
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities David Shteynberg
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities Piero Giansanti
  • Re: [spctools-discuss] PTMprophet with open search, interpretation of PTM probabilities David Shteynberg
• RE: [spctools-discuss] StPeter blank values Michael Hoopmann
  • Re: [spctools-discuss] StPeter blank values Alexander Pelletier
  • RE: [spctools-discuss] StPeter blank values Michael Hoopmann
  • Re: [spctools-discuss] StPeter blank values Alexander Pelletier
  • Re: [spctools-discuss] StPeter blank values Michael Hoopmann
• [spctools-discuss] Duplicate peptides in consensus spectral library with different protein identifications Sami Pietilä
  • RE: [spctools-discuss] Duplicate peptides in consensus spectral library with different protein identifications Eric Deutsch

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