spctools-discuss  

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• • Re: [spctools-discuss] combining two or more pep.xml for abacus Jimmy Eng
• [spctools-discuss] A complicated but seems easy problem of inferring FDR in protein level zion
  • Re: [spctools-discuss] A complicated but seems easy problem of inferring FDR in protein level Michael Hoopmann
  • [spctools-discuss] Re: A complicated but seems easy problem of inferring FDR in protein level Brendan MacLean
  • [spctools-discuss] Re: A complicated but seems easy problem of inferring FDR in protein level zion
  • Re: [spctools-discuss] Re: A complicated but seems easy problem of inferring FDR in protein level Michael Hoopmann
• [spctools-discuss] Next TPP course March 31 - April 4: registration is open! Eric Deutsch
• [spctools-discuss] proteome discoverer and peptide prophet comparison Delphine
• Re: [spctools-discuss] Digest for [email protected] - 14 Messages in 4 Topics delphine wood
• [spctools-discuss] empty interact.pep.xml and interact.prot.xml user1
  • Re: [spctools-discuss] empty interact.pep.xml and interact.prot.xml Luis Mendoza
• [spctools-discuss] Re: xargs:cannot fork? user1
  • Re: [spctools-discuss] Re: xargs:cannot fork? Joseph Slagel
  • [spctools-discuss] Re: xargs:cannot fork? user1
• [spctools-discuss] sequest and tpp newuser
• [spctools-discuss] TPP on cluster - Petunia running remotely? Joshua Dunham
  • Re: [spctools-discuss] TPP on cluster - Petunia running remotely? Joseph Slagel
  • Re: [spctools-discuss] TPP on cluster - Petunia running remotely? Gary Smith
  • Re: [spctools-discuss] TPP on cluster - Petunia running remotely? Joseph Slagel
  • Re: [spctools-discuss] TPP on cluster - Petunia running remotely? Joshua Dunham
• [spctools-discuss] error with installing TPP4.5.2 fangqiaojun
  • [spctools-discuss] Re: error with installing TPP4.5.2 chr12is
  • Re: [spctools-discuss] Re: error with installing TPP4.5.2 Joseph Slagel
  • [spctools-discuss] Re: error with installing TPP4.5.2 fangqiaojun
  • [spctools-discuss] Re: error with installing TPP4.5.2 fangqiaojun
  • [spctools-discuss] Re: error with installing TPP4.5.2 fangqiaojun
• [spctools-discuss] One simple problem of proteinProphet zion
  • Re: [spctools-discuss] One simple problem of proteinProphet Luis Mendoza
• Re: [spctools-discuss] problem to view PepC results Luis Mendoza
• [spctools-discuss] [Please HELP!!!]Problem about phospho-peptide confidence when running peptideProphet and proteinProphet zion
  • [spctools-discuss] Re: [Please HELP!!!]Problem about phospho-peptide confidence when running peptideProphet and proteinProphet GATTACA
• [spctools-discuss] apex ato
  • [spctools-discuss] Re: apex Taejoon Kwon
• [spctools-discuss] Uniprot Database ato
  • [spctools-discuss] Re: Uniprot Database Jason Winget
• [spctools-discuss] Problem installing TPP 4.6.3 on mac 10.7.4 Holy Rapan
  • [spctools-discuss] Re: Problem installing TPP 4.6.3 on mac 10.7.4 Bjorn
• [spctools-discuss] PTMProphet problem!!! zion
  • Re: [spctools-discuss] PTMProphet problem!!! David Shteynberg
• [spctools-discuss] Installing TPP-4.6.3 on mac os 10.7.4 Holy Rapan
• [spctools-discuss] Anyone running TPP on Mac 10.9 (Mavericks)? Bjorn
  • Re: [spctools-discuss] Anyone running TPP on Mac 10.9 (Mavericks)? Joseph Slagel
  • Re: [spctools-discuss] Anyone running TPP on Mac 10.9 (Mavericks)? Dave Trudgian
  • Re: [spctools-discuss] Anyone running TPP on Mac 10.9 (Mavericks)? Dave Trudgian
  • Re: [spctools-discuss] Anyone running TPP on Mac 10.9 (Mavericks)? Joseph Slagel
  • Re: [spctools-discuss] Anyone running TPP on Mac 10.9 (Mavericks)? Dave Trudgian
  • Re: [spctools-discuss] Anyone running TPP on Mac 10.9 (Mavericks)? Ulrich auf dem Keller
  • Re: [spctools-discuss] Anyone running TPP on Mac 10.9 (Mavericks)? Bjorn
  • [spctools-discuss] TPP-4.7 Mac OS X - PepXMLViewer - memory leakage Ulrich auf dem Keller
  • Re: [spctools-discuss] TPP-4.7 Mac OS X - PepXMLViewer - memory leakage Luis Mendoza
  • Re: [spctools-discuss] TPP-4.7 Mac OS X - PepXMLViewer - memory leakage Ulrich auf dem Keller
  • Re: [spctools-discuss] TPP-4.7 Mac OS X - PepXMLViewer - memory leakage Ulrich auf dem Keller
  • [spctools-discuss] Re: Anyone running TPP on Mac 10.9 (Mavericks)? Bjorn
• [spctools-discuss] Getting (global)FDR in proteinProphet? zion
• [spctools-discuss] Error "decimal separator" on conversion process DELOLME Frederic
  • RE: [spctools-discuss] Error "decimal separator" on conversion process Eric Deutsch
  • Re: [spctools-discuss] Error "decimal separator" on conversion process DELOLME Frederic
  • RE: [spctools-discuss] Error "decimal separator" on conversion process Eric Deutsch
• [spctools-discuss] Problem of converting .dat to .pepxml zion
  • Re: [spctools-discuss] Problem of converting .dat to .pepxml David Shteynberg
  • Re: [spctools-discuss] Problem of converting .dat to .pepxml David Shteynberg
  • Re: [spctools-discuss] Problem of converting .dat to .pepxml zion
  • Re: [spctools-discuss] Problem of converting .dat to .pepxml David Shteynberg
  • Re: [spctools-discuss] Problem of converting .dat to .pepxml zion
  • Re: [spctools-discuss] Problem of converting .dat to .pepxml zion
  • Re: [spctools-discuss] Problem of converting .dat to .pepxml David Shteynberg
  • Re: [spctools-discuss] Problem of converting .dat to .pepxml zion
  • Re: [spctools-discuss] Problem of converting .dat to .pepxml echozhoujy
• [spctools-discuss] How are num_unique_peptides calculated? Bosco Ho
  • Re: [spctools-discuss] How are num_unique_peptides calculated? Luis Mendoza
• [spctools-discuss] Problem analyzing raw data from samples with non specific enzyme treatment Theofilos
  • Re: [spctools-discuss] Problem analyzing raw data from samples with non specific enzyme treatment Brian Hampton
  • [spctools-discuss] Re: Problem analyzing raw data from samples with non specific enzyme treatment Theofilos
• [spctools-discuss] Conditional execution of tpp_models.pl in xinteract Josh Eckels
  • Re: [spctools-discuss] Conditional execution of tpp_models.pl in xinteract Luis Mendoza
• [spctools-discuss] Re: Problems building boost inside TPP Han Jo
  • [spctools-discuss] Re: Problems building boost inside TPP ChargedPeptide
  • [spctools-discuss] Re: Problems building boost inside TPP ChargedPeptide
  • [spctools-discuss] Re: Problems building boost inside TPP Han Jo
  • [spctools-discuss] Re: Problems building boost inside TPP Han Jo
  • Re: [spctools-discuss] Re: Problems building boost inside TPP Joseph Slagel
  • Re: [spctools-discuss] Re: Problems building boost inside TPP Han Jo
  • Re: [spctools-discuss] Re: Problems building boost inside TPP Joseph Slagel
  • Re: [spctools-discuss] Re: Problems building boost inside TPP Joseph Slagel
  • Re: [spctools-discuss] Re: Problems building boost inside TPP Amin Momin
  • Re: [spctools-discuss] Re: Problems building boost inside TPP Joseph Slagel
  • Re: [spctools-discuss] Re: Problems building boost inside TPP Amin Momin
  • Re: [spctools-discuss] Re: Problems building boost inside TPP Joseph Slagel
  • Re: [spctools-discuss] Re: Problems building boost inside TPP Amin Momin
  • Re: [spctools-discuss] Re: Problems building boost inside TPP dannjaron
• [spctools-discuss] ASAPRatio error jgibbons1
  • Re: [spctools-discuss] ASAPRatio error David Shteynberg
• [spctools-discuss] Re: PeptideProphet errors in tpp_models.pl jgibbons1
• [spctools-discuss] Z-score vs tandem parameters Robert Jones
• [spctools-discuss] Unable to convert OMSSA xml file to .pep.xml by omssa2pepXML.exe punit kadimi
  • Re: [spctools-discuss] Unable to convert OMSSA xml file to .pep.xml by omssa2pepXML.exe Punit Kadimi
• [spctools-discuss] Unable to process comet.2012013.win64.exe output with peptide prophet punit kadimi
  • [spctools-discuss] Unable to process comet.2012013.win64.exe output with peptide prophet Punit Kadimi
  • Re: [spctools-discuss] Unable to process comet.2012013.win64.exe output with peptide prophet Jimmy Eng
  • Re: [spctools-discuss] Unable to process comet.2012013.win64.exe output with peptide prophet Punit Kadimi
  • Re: [spctools-discuss] Unable to process comet.2012013.win64.exe output with peptide prophet Jimmy Eng
  • Re: [spctools-discuss] Unable to process comet.2012013.win64.exe output with peptide prophet Punit Kadimi
• [spctools-discuss] cannot convert Thermo raw data to MzML Konstantinos Vougas
  • Re: [spctools-discuss] cannot convert Thermo raw data to MzML Brian Pratt
• [spctools-discuss] Re: t2D converter Bell
  • [spctools-discuss] Re: t2D converter Mehran Umerani
• [spctools-discuss] Re: Mascot2XML and Lorikeet spectrum viewer Manu
• [spctools-discuss] MudPIT Protein Identification with X!Tandem bguyonnet63 .
• [spctools-discuss] Re: Excel from prot.xml with XPRESS ratios [email protected]
  • [spctools-discuss] Re: Excel from prot.xml with XPRESS ratios Jason Winget
  • [spctools-discuss] Re: Excel from prot.xml with XPRESS ratios chr12is
  • [spctools-discuss] Re: Excel from prot.xml with XPRESS ratios chr12is
  • [spctools-discuss] Re: Excel from prot.xml with XPRESS ratios chr12is
  • [spctools-discuss] Re: Excel from prot.xml with XPRESS ratios Jason Winget
• [spctools-discuss] label free quantitation by xpress dwang7
  • Re: [spctools-discuss] label free quantitation by xpress Jimmy Eng
  • Re: [spctools-discuss] label free quantitation by xpress dwang7
• [spctools-discuss] Trans-Proteomic Pipeline and PVS-Studio Андрей Карпов
• [spctools-discuss] Unexpected extension in an input file with TPP v4.6 OCCUPY RC7 rev 3 DELOLME Frederic
  • Re: [spctools-discuss] Unexpected extension in an input file with TPP v4.6 OCCUPY RC7 rev 3 Luis Mendoza
  • [spctools-discuss] Re: Unexpected extension in an input file with TPP v4.6 OCCUPY RC7 rev 3 Cedric Leduc
• [spctools-discuss] Comet + InteractParser - interact.pep.xml sometimes not ended correctly Dave Trudgian
  • Re: [spctools-discuss] Comet + InteractParser - interact.pep.xml sometimes not ended correctly Luis Mendoza
• [spctools-discuss] TPP 4-6-3 (and 4-6-2) don't compile in Ubuntu 13.04 (Workaround) Samuel Wein
• [spctools-discuss] Running the TPP on an HPC through Command Line Robert Jones
  • Re: [spctools-discuss] Running the TPP on an HPC through Command Line Joseph Slagel
  • Re: [spctools-discuss] Running the TPP on an HPC through Command Line Robert Jones
  • Re: [spctools-discuss] Running the TPP on an HPC through Command Line Joseph Slagel
  • Re: [spctools-discuss] Running the TPP on an HPC through Command Line Robert Jones
  • Re: [spctools-discuss] Running the TPP on an HPC through Command Line Dave Trudgian
  • Re: [spctools-discuss] Running the TPP on an HPC through Command Line Robert Jones
  • Re: [spctools-discuss] Running the TPP on an HPC through Command Line devesh chourasiya
  • Re: [spctools-discuss] Running the TPP on an HPC through Command Line Joseph Slagel
• [spctools-discuss] TPP: UNC paths are not supported when using Mascot2XML baotranuio
  • Re: [spctools-discuss] TPP: UNC paths are not supported when using Mascot2XML Joseph Slagel
• [spctools-discuss] Inconsistent enzyme specificity definitions Dave Trudgian
  • [spctools-discuss] Re: Inconsistent enzyme specificity definitions Dave Trudgian
  • [spctools-discuss] Re: Inconsistent enzyme specificity definitions Dave Trudgian
• Re: [spctools-discuss] Protein Prophet - No data quitting Rishika Bisaria
  • Re: [spctools-discuss] Protein Prophet - No data quitting Joseph Slagel
  • Re: [spctools-discuss] Protein Prophet - No data quitting David Shteynberg
  • Re: [spctools-discuss] Protein Prophet - No data quitting lars20070
  • Re: [spctools-discuss] Protein Prophet - No data quitting David Shteynberg
  • Re: [spctools-discuss] Protein Prophet - No data quitting lars20070
  • Re: [spctools-discuss] Protein Prophet - No data quitting lars20070
• [spctools-discuss] ms-gf+ support [email protected]
  • Re: [spctools-discuss] ms-gf+ support David Shteynberg
• [spctools-discuss] Error with ProteinProphet Rishika Bisaria
  • Re: [spctools-discuss] Error with ProteinProphet David Shteynberg
  • Re: [spctools-discuss] Error with ProteinProphet Rishika Bisaria
  • Re: [spctools-discuss] Error with ProteinProphet David Shteynberg
  • Re: [spctools-discuss] Error with ProteinProphet Rishika Bisaria
  • Re: [spctools-discuss] Error with ProteinProphet David Shteynberg
  • Re: [spctools-discuss] Error with ProteinProphet Rishika Bisaria
• [spctools-discuss] Without decoy database got the result in 2 hrs but with decoy database not got the result after 2 days ruchir mishra
  • Re: [spctools-discuss] Without decoy database got the result in 2 hrs but with decoy database not got the result after 2 days David Shteynberg
  • Re: [spctools-discuss] Without decoy database got the result in 2 hrs but with decoy database not got the result after 2 days ruchir mishra
  • Re: [spctools-discuss] Without decoy database got the result in 2 hrs but with decoy database not got the result after 2 days David Shteynberg
  • Re: [spctools-discuss] Without decoy database got the result in 2 hrs but with decoy database not got the result after 2 days ruchir mishra
  • Re: [spctools-discuss] Without decoy database got the result in 2 hrs but with decoy database not got the result after 2 days David Shteynberg
  • Re: [spctools-discuss] Without decoy database got the result in 2 hrs but with decoy database not got the result after 2 days ruchir mishra
• [spctools-discuss] Use of qw in tpp_models chr12is
  • Re: [spctools-discuss] Use of qw in tpp_models Luis Mendoza
• [spctools-discuss] Xinteract error chr12is
  • Re: [spctools-discuss] Xinteract error Jimmy Eng
  • Re: [spctools-discuss] Xinteract error chr12is
• [spctools-discuss] Re: TPP-4.6.2 on Ubuntu12.04-LTS Byron Yi
• [spctools-discuss] RE: TPP courses at ISB in Seattle July 8-12 and Yokohama Sep 10-13 Eric Deutsch
• [spctools-discuss] SpectraST Linux Standalone installation issues Jeffrey Milloy
• [spctools-discuss] Any one has a newer mzWiff that can preserve the original sample names in wiff file? kangufo
  • [spctools-discuss] Re: Any one has a newer mzWiff that can preserve the original sample names in wiff file? kangufo
  • Re: [spctools-discuss] Re: Any one has a newer mzWiff that can preserve the original sample names in wiff file? Jimmy Eng
  • Re: [spctools-discuss] Re: Any one has a newer mzWiff that can preserve the original sample names in wiff file? Matt Chambers
• [spctools-discuss] Does any one have new mzWiff that preserves the original sample names in wiff file kangufo
• [spctools-discuss] XTandem and k-score Rishika Bisaria
  • Re: [spctools-discuss] XTandem and k-score Jimmy Eng
  • Re: [spctools-discuss] XTandem and k-score Rishika Bisaria
  • Re: [spctools-discuss] XTandem and k-score Jimmy Eng
  • Re: [spctools-discuss] XTandem and k-score Rishika Bisaria
  • Re: [spctools-discuss] XTandem and k-score Joseph Slagel
  • Re: [spctools-discuss] XTandem and k-score Rishika Bisaria
  • Re: [spctools-discuss] XTandem and k-score Rishika Bisaria
• [spctools-discuss] TPP 4.6.3 Release is Available Joseph Slagel
• [spctools-discuss] Matched ions in x!tandem Bosco Ho
  • Re: [spctools-discuss] Matched ions in x!tandem Jimmy Eng
  • Re: [spctools-discuss] Matched ions in x!tandem Bosco Ho
• [spctools-discuss] tsv/excel export from large pep.xml / iprophet not working philipp (Overall Lab / UBC Vancouver)
  • Re: [spctools-discuss] tsv/excel export from large pep.xml / iprophet not working Luis Mendoza
  • Re: [spctools-discuss] tsv/excel export from large pep.xml / iprophet not working philipp (Overall Lab / UBC Vancouver)
  • Re: [spctools-discuss] tsv/excel export from large pep.xml / iprophet not working Luis Mendoza
• [spctools-discuss] Altering X!tandem parameters for Glu-C processing Kierstin
  • [spctools-discuss] Re: Altering X!tandem parameters for Glu-C processing Dave Trudgian
• [spctools-discuss] Re: TPP unable to detect xxxx.tandem.params files Feifei Guo
• [spctools-discuss] amztpp user for ssh Ben Temperton
  • Re: [spctools-discuss] amztpp user for ssh Joseph Slagel
• Re: [spctools-discuss] X! TANDEM error Kierstin
  • Re: [spctools-discuss] X! TANDEM error Joseph Slagel
  • Re: [spctools-discuss] X! TANDEM error Norbert Mehlmer
  • Re: [spctools-discuss] X! TANDEM error David Shteynberg
• Re: [spctools-discuss] PeptideProphet Rishika Bisaria

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