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From: Eric D. <not...@gi...> - 2016-06-09 17:31:06
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Many/most of the mzIdentML files do not reference the CVs properly. All files should be checked and corrected. I believe that the correct CV locations should be: https://raw.githubusercontent.com/HUPO-PSI/psi-ms-CV/master/psi-ms.obo https://raw.githubusercontent.com/bio-ontology-research-group/unit-ontology/master/unit.obo Is that right? Corrections welcome. --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/42 |
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From: Eric D. <not...@gi...> - 2016-06-09 17:25:32
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These files do not properly reference that they are mzIdentML 1.2. Mixed references to 1.1 and 1.2 <MzIdentML xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:xsd="http://www.w3.org/2001/XMLSchema" id="" xsi:schemaLocation="http://psidev.info/psi /pi/mzIdentML/1.1 mzIdentML1.1.0.xsd" creationDate="2014-06-03T14:54:40.852156Z" version="1.2.0" xmlns="http://psidev.info/psi/pi/mzIdentML/1.1"> cannot validate --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/41 |
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From: Eric D. <not...@gi...> - 2016-06-09 17:22:30
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ERROR: cvParam product ion intensity should have units, but it does not! ERROR: cvParam product ion m/z should have units, but it does not! WARNING: MS:1001062 should be 'Mascot MGF format' instead of 'Mascot MGF file' WARNING: MS:1001149 should be 'param: b ion-NH3 DEPRECATED' instead of 'param: b ion-NH3' WARNING: MS:1001150 should be 'param: b ion-H2O DEPRECATED' instead of 'param: b ion-H2O' WARNING: MS:1001151 should be 'param: y ion-NH3 DEPRECATED' instead of 'param: y ion-NH3' WARNING: MS:1001152 should be 'param: y ion-H2O DEPRECATED' instead of 'param: y ion-H2O' WARNING: MS:1001171 should be 'Mascot:score' instead of 'mascot:score' WARNING: MS:1001172 should be 'Mascot:expectation value' instead of 'mascot:expectation value' WARNING: MS:1001189 should be 'modification specificity peptide N-term' instead of 'modification specificity N-term' WARNING: MS:1001199 should be 'Mascot DAT format' instead of 'Mascot DAT file' WARNING: MS:1001316 should be 'Mascot:SigThreshold' instead of 'mascot:SigThreshold' WARNING: MS:1001370 should be 'Mascot:homology threshold' instead of 'mascot:homology threshold' WARNING: MS:1001371 should be 'Mascot:identity threshold' instead of 'mascot:identity threshold' WARNING: MS:1002241 should be 'mzidLib:ProteoGrouper' instead of 'ProteoGrouper' WARNING: MS:1002404 should be 'count of identified proteins' instead of 'count of identified protein' --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/40 |
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From: Eric D. <not...@gi...> - 2016-06-09 17:20:39
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SchemaLocation is http://www.psidev.info/files/mzIdentML1.1.0.xsd ERROR: cvParam PSM-level q-value should have units, but it does not! WARNING: MS:1001062 should be 'Mascot MGF format' instead of 'Mascot MGF file' WARNING: MS:1001189 should be 'modification specificity peptide N-term' instead of 'modification specificity N-term' WARNING: MS:1002241 should be 'mzidLib:ProteoGrouper' instead of 'ProteoGrouper' WARNING: MS:1002404 should be 'count of identified proteins' instead of 'count of identified protein' --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/39 |
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From: Eric D. <not...@gi...> - 2016-06-09 17:18:00
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ERROR: cvParam local FDR should have units, but it does not! ERROR: cvParam q-value for peptides should have units, but it does not! (the previous two may be errors in the CV itself?) WARNING: MS:1001062 should be 'Mascot MGF format' instead of 'Mascot MGF file' WARNING: MS:1001189 should be 'modification specificity peptide N-term' instead of 'modification specificity N-term' WARNING: MS:1001330 should be 'X!Tandem:expect' instead of 'X\!Tandem:expect' WARNING: MS:1001331 should be 'X!Tandem:hyperscore' instead of 'X\!Tandem:hyperscore' WARNING: MS:1001401 should be 'X!Tandem xml format' instead of 'X\!Tandem xml file' WARNING: MS:1001476 should be 'X!Tandem' instead of 'X\!Tandem' WARNING: MS:1001868 should be 'distinct peptide-level q-value' instead of 'q-value for peptides' WARNING: MS:1002244 should be 'mzidLib:FalseDiscoveryRate' instead of 'mzidLib:FalseDiscoveryRat' WARNING: MS:1002404 should be 'count of identified proteins' instead of 'count of identified protein' I'm not quite sure what to make of the X\!Tandem business. That is the the way it is written in the OBO file, but I assume that is an escape character that is not to be included in the XML? Or? Should that even be in the OBO file? Is that a limitation of the OBO format? I assume so, because the OBO format uses an ! as a separater character in some places. This should not be repeated in the XML? --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/38 |
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From: Eric D. <not...@gi...> - 2016-06-09 17:08:31
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ERROR: cvParam retention time should have units, but it does not! ERROR: cvParam search engine specific score for PSMs has a value, but it should not! WARNING: cvParam product ion intensity has a legal unit MS:1000131 but its name 'MS:1000131' should be 'number of detector counts'! WARNING: MS:1002510 should be 'cross-link acceptor' instead of 'cross-link receiver' --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/37 |
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From: Eric D. <not...@gi...> - 2016-06-09 16:44:31
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ERROR: cvParam anchor protein should have a value, but it does not!
ERROR: cvParam protein-pair-level global FDR has a value, but it should not!
ERROR: cvParam residue-pair-level global FDR has a value, but it should not!
WARNING: CV term MS:1002675 ('residue-pair-level global FDR') is not in the cv
WARNING: CV term MS:1002676 ('protein-pair-level global FDR') is not in the cv
WARNING: MS:1000563 should be 'Thermo RAW format' instead of 'Thermo Raw file'
WARNING: MS:1002404 should be 'count of identified proteins' instead of 'count of identified protein'
WARNING: MS:1002511 should be 'cross-link spectrum identification item' instead of 'Cross-linked spectrum identification item.'
WARNING: MS:1002544 should be 'xi' instead of 'xiFDR'
WARNING: MS:1002545 should be 'xi:score' instead of 'The xi result 'Score'.'
---
You are receiving this because you are subscribed to this thread.
Reply to this email directly or view it on GitHub:
https://github.com/HUPO-PSI/mzIdentML/issues/36 |
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From: Eric D. <not...@gi...> - 2016-06-09 16:36:22
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My CV term validator finds these issues with this file: ERROR: cvParam distinct peptide-level q-value should have units, but it does not! WARNING: MS:1001062 should be 'Mascot MGF format' instead of 'Mascot MGF file' WARNING: MS:1001400 should be 'OMSSA xml format' instead of 'OMSSA xml file' WARNING: MS:1002439 should be 'final PSM list' instead of 'final PSM list UNDER DISCUSSION' the first error may be an error in the CV. I don't think we want units for q-value in the term? Should we remove units from all q-value terms? This issue affects several. [Term] id: MS:1001868 name: distinct peptide-level q-value def: "Estimation of the q-value for distinct peptides once redundant identifications of the same peptide have been removed (id e st multiple PSMs, possibly with different mass modifications, mapping to the same sequence have been collapsed to one entry)." [ PSI:PI] xref: value-type:xsd\:double "The allowed value-type for this CV term." is_a: MS:1002484 ! peptide-level statistical threshold relationship: has_units UO:0000166 ! parts per notation unit relationship: has_units UO:0000187 ! percent relationship: has_domain MS:1002305 ! value between 0 and 1 inclusive --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/35 |
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From: andrewrobertjones <not...@gi...> - 2016-06-09 15:49:35
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@germa - Can you update the validator to check the regex structure for Lutz examples. --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/24#issuecomment-224938334 |
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From: andrewrobertjones <not...@gi...> - 2016-06-09 15:46:45
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Reviewed current structure, looks good overall. Andy and Eric will continue to work on this and the mapping file --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/25#issuecomment-224937451 |
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From: andrewrobertjones <not...@gi...> - 2016-06-09 15:21:11
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Proposal from Eric: [PSI-MS_statisticEntries.xlsx](https://github.com/HUPO-PSI/mzIdentML/files/307250/PSI-MS_statisticEntries.xlsx) term component definitions: - attribute a general property of an entity (may be a statistic, or a more general property) - statistic a derived numerical metric generally related to confidence in a result - PTM localization related to the exact position of a mass modification (not necessarily a biological PTM) - PSM-level pertaining to one or more peptide-spectrum matches - peptide ion-level pertaining to one or more PSM with the same sequence, modifications, charge - modified peptide-level pertaining to one or more PSMs with the same sequence and modifications - peptide sequence-level pertaining to one or more distinct peptide sequences, irrespective of charge or modification - protein-level pertaining to one or more specific protein entries - protein group-level pertaining to one or more protein ambiguity groups ----------------------------------------- - analysis attribute - PTM localization attribute - PTM localization single result statistic - PTM localization PSM-level statistic - PTM localization distinct peptide-level statistic - PTM localization result list statistic - identification attribute - single identification result attribute - PSM-level identification attribute - PSM-level identification statistic - PSM-level identification confidence metric - PSM-level search engine specific statistic - cross-linking attribute - product ion attribute - peptide sequence-level identification attribute - peptide sequence-level identification statistic - protein-level identification attribute - protein-level identification statistic - protein group-level identification attribute - protein group-level identification statistic - result list attribute - PSM-level result list attribute - PSM-level result list statistic - distinct peptide-level result list attribute - distinct peptide-level result list statistic - protein-level result list attribute - protein-level result list statistic - protein group-level result list attribute - protein group-level result list statistic --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/25#issuecomment-224929441 |
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From: andrewrobertjones <not...@gi...> - 2016-06-09 15:19:25
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Closed #30. --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/30#event-687392227 |
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From: andrewrobertjones <not...@gi...> - 2016-06-09 15:19:25
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Agreed to this encoding, I will add this to the spec doc --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/30#issuecomment-224928924 |
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From: Mathias W. <not...@gi...> - 2016-06-09 15:00:08
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Closed #31. --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/31#event-687364082 |
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From: Mathias W. <not...@gi...> - 2016-06-09 14:45:30
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@germa thx Gerhard! (btw, @matt... not my handle :smile: ) --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/31#issuecomment-224917613 |
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From: Gerhard M. <not...@gi...> - 2016-06-09 12:59:24
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@matthias The allowed value 4 is already added; in case it does not work, please send me an example file --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/31#issuecomment-224886692 |
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From: Mathias W. <not...@gi...> - 2016-06-09 11:02:50
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@germa can you please add this to the validator? --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/31#issuecomment-224863653 |
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From: Jones, A. <And...@li...> - 2016-06-09 10:51:33
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Thanks – okay we will go ahead with the call From: Yasset Perez-Riverol [mailto:yp...@eb...] Sent: 09 June 2016 11:15 To: Jones, Andy <jo...@li...>; 'psi...@li...' <psi...@li...> Subject: Re: [Psidev-pi-dev] mzid call today I can do it On 09/06/2016 11:12, Jones, Andy wrote: Hi all, Can someone from the EBI start a call for us today? If so, we will have a brief mzid 1.2 call at 4pm UK time (http://www.timeanddate.com/worldclock/fixedtime.html?iso=20160609T16&p1=301) to see if there is anything outstanding before getting all the submission docs in order. Can everyone re-check your example files for the different features with the latest validator https://github.com/HUPO-PSI/mzIdentML/releases/tag/mzIdentMLValidator_GUI_v1.4.18-SNAPSHOT And open any issues. Please also report back if everything passes validation okay. Best wishes Andy Numbers: + UK: 0808 109 5644 + US: 877-420-0272 + Belgium: 0800 509 80 + Germany: 0800 101 2079 + Switzerland: 0800 000 860 + Generic international: +44 (0) 20 8322 2500 (UK number) Access code: 297427 # From: Jones, Andy [mailto:And...@li...] Sent: 01 June 2016 09:22 To: 'psi...@li...<mailto:psi...@li...>' <psi...@li...><mailto:psi...@li...> Subject: [Psidev-pi-dev] mzid call today Hi all, Apologies for the short notice. Assuming people can join, let’s have an mzid 1.2 call at 4pm UK today (1st June): http://www.timeanddate.com/worldclock/fixedtime.html?iso=20160601T16&p1=301 We will work through the issue list: https://github.com/HUPO-PSI/mzIdentML/issues as far as possible. Please check in any updates to example files, and report back whether the validator appears to be catching both good and bad examples correctly. Best wishes Andy Numbers: + UK: 0808 109 5644 + US: 877-420-0272 + Belgium: 0800 509 80 + Germany: 0800 101 2079 + Switzerland: 0800 000 860 + Generic international: +44 (0) 20 8322 2500 (UK number) Access code: 297427 # ------------------------------------------------------------------------------ What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic patterns at an interface-level. Reveals which users, apps, and protocols are consuming the most bandwidth. Provides multi-vendor support for NetFlow, J-Flow, sFlow and other flows. Make informed decisions using capacity planning reports. https://ad.doubleclick.net/ddm/clk/305295220;132659582;e _______________________________________________ Psidev-pi-dev mailing list Psi...@li...<mailto:Psi...@li...> https://lists.sourceforge.net/lists/listinfo/psidev-pi-dev -- Yasset Perez-Riverol PhD. Bioinformatician Proteomics Services Team, PRIDE Group European Bioinformatics Institute (EMBL-EBI) Wellcome Trust Genome Campus Hinxton Cambridge CB10 1SD United Kingdom Twitter: @ypriverol |
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From: Yasset Perez-R. <yp...@eb...> - 2016-06-09 10:14:58
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I can do it On 09/06/2016 11:12, Jones, Andy wrote: > > Hi all, > > Can someone from the EBI start a call for us today? If so, we will > have a brief mzid 1.2 call at 4pm UK time > (http://www.timeanddate.com/worldclock/fixedtime.html?iso=20160609T16&p1=301) > to see if there is anything outstanding before getting all the > submission docs in order. > > Can everyone re-check your example files for the different features > with the latest validator > https://github.com/HUPO-PSI/mzIdentML/releases/tag/mzIdentMLValidator_GUI_v1.4.18-SNAPSHOT > > And open any issues. Please also report back if everything passes > validation okay. > > Best wishes > > Andy > > Numbers: > > + UK: 0808 109 5644 > > + US: 877-420-0272 > > + Belgium: 0800 509 80 > > + Germany: 0800 101 2079 > > + Switzerland: 0800 000 860 > > + Generic international: +44 (0) 20 8322 2500 (UK number) > > Access code: 297427 # > > *From:*Jones, Andy [mailto:And...@li...] > *Sent:* 01 June 2016 09:22 > *To:* 'psi...@li...' > <psi...@li...> > *Subject:* [Psidev-pi-dev] mzid call today > > Hi all, > > Apologies for the short notice. Assuming people can join, let’s have > an mzid 1.2 call at 4pm UK today (1^st June): > http://www.timeanddate.com/worldclock/fixedtime.html?iso=20160601T16&p1=301 > > We will work through the issue list: > https://github.com/HUPO-PSI/mzIdentML/issues > <https://github.com/HUPO-PSI/mzIdentML/issues> as far as possible. > Please check in any updates to example files, and report back whether > the validator appears to be catching both good and bad examples correctly. > > Best wishes > > Andy > > Numbers: > > + UK: 0808 109 5644 > > + US: 877-420-0272 > > + Belgium: 0800 509 80 > > + Germany: 0800 101 2079 > > + Switzerland: 0800 000 860 > > + Generic international: +44 (0) 20 8322 2500 (UK number) > > Access code: 297427 # > > > > ------------------------------------------------------------------------------ > What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic > patterns at an interface-level. Reveals which users, apps, and protocols are > consuming the most bandwidth. Provides multi-vendor support for NetFlow, > J-Flow, sFlow and other flows. Make informed decisions using capacity > planning reports. https://ad.doubleclick.net/ddm/clk/305295220;132659582;e > > > _______________________________________________ > Psidev-pi-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-pi-dev -- Yasset Perez-Riverol PhD. Bioinformatician Proteomics Services Team, PRIDE Group European Bioinformatics Institute (EMBL-EBI) Wellcome Trust Genome Campus Hinxton Cambridge CB10 1SD United Kingdom Twitter: @ypriverol |
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From: Jones, A. <And...@li...> - 2016-06-09 10:12:51
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Hi all, Can someone from the EBI start a call for us today? If so, we will have a brief mzid 1.2 call at 4pm UK time (http://www.timeanddate.com/worldclock/fixedtime.html?iso=20160609T16&p1=301) to see if there is anything outstanding before getting all the submission docs in order. Can everyone re-check your example files for the different features with the latest validator https://github.com/HUPO-PSI/mzIdentML/releases/tag/mzIdentMLValidator_GUI_v1.4.18-SNAPSHOT And open any issues. Please also report back if everything passes validation okay. Best wishes Andy Numbers: + UK: 0808 109 5644 + US: 877-420-0272 + Belgium: 0800 509 80 + Germany: 0800 101 2079 + Switzerland: 0800 000 860 + Generic international: +44 (0) 20 8322 2500 (UK number) Access code: 297427 # From: Jones, Andy [mailto:And...@li...] Sent: 01 June 2016 09:22 To: 'psi...@li...' <psi...@li...> Subject: [Psidev-pi-dev] mzid call today Hi all, Apologies for the short notice. Assuming people can join, let’s have an mzid 1.2 call at 4pm UK today (1st June): http://www.timeanddate.com/worldclock/fixedtime.html?iso=20160601T16&p1=301 We will work through the issue list: https://github.com/HUPO-PSI/mzIdentML/issues as far as possible. Please check in any updates to example files, and report back whether the validator appears to be catching both good and bad examples correctly. Best wishes Andy Numbers: + UK: 0808 109 5644 + US: 877-420-0272 + Belgium: 0800 509 80 + Germany: 0800 101 2079 + Switzerland: 0800 000 860 + Generic international: +44 (0) 20 8322 2500 (UK number) Access code: 297427 # |
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From: mayerg97 <ger...@ru...> - 2016-06-08 15:11:52
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Dear proteomics community, attached there's the release candidate 3.90.0_rc2 of the psi-ms.obo file containing new terms for the annotation of cross-linking files and for supplemental, activation. New CV terms in version 3.90.0_rc2 of psi-ms.obo: ================================================= ************ terms for cross-linking annotation [Term] id: MS:1002675 name: cross-linking result details def: "This subsection describes terms which can describe details of cross-linking results." [PSI:PI] relationship: part_of MS:1001000 ! spectrum interpretation [Term] id: MS:1002676 name: protein-pair-level global FDR def: "Estimation of the global false discovery rate of proteins-pairs in cross-linking experiments." [PSI:PI] xref: value-type:xsd\:double "The allowed value-type for this CV term." is_a: MS:1002675 ! cross-linking result details relationship: has_domain MS:1002305 ! value between 0 and 1 inclusive [Term] id: MS:1002677 name: residue-pair-level global FDR def: "Estimation of the global false discovery rate of residue-pairs in cross-linking experiments." [PSI:PI] xref: value-type:xsd\:double "The allowed value-type for this CV term." is_a: MS:1002675 ! cross-linking result details relationship: has_domain MS:1002305 ! value between 0 and 1 inclusive ************ Terms for supplemental activation ************ @Matt: When I uderstood you correctly, the supplemental terms are needed only for HCD and CID, is that correct ? [Term] id: MS:1002678 name: supplemental higher energy beam-type collision-induced dissociation def: "A supplemental collision-induced dissociation process wherein the projectile ion has the translational energy higher than approximately 1000 eV." [PSI:MS] is_a: MS:1000422 ! beam-type collision-induced dissociation [Term] id: MS:1002679 name: supplemental collision-induced dissociation def: "The dissociation of an ion after supplemental collisional excitation." [PSI:MS] is_a: MS:1000044 ! dissociation method [Term] id: MS:1002680 name: supplemental collision energy def: "Energy for an ion experiencing supplemental collision with a stationary gas particle resulting in dissociation of the ion." [PSI:MS] xref: value-type:xsd\:float "The allowed value-type for this CV term." is_a: MS:1000510 ! precursor activation attribute relationship: has_units UO:0000266 ! electronvolt Best Regards, Gerhard -- *--* *Dipl. Inform. med., Dipl. Wirtsch. **Inf. GERHARD MAYER* *PhD student* *Medizinisches Proteom-Center* *DEPARTMENT Medical Bioinformatics* *Building *ZKF E.049a | Universitätsstraße 150 | D-44801 Bochum *Fon *+49 (0)234 32-21006 | *Fax *+49 (0)234 32-14554 *E-mail***ger...@ru... <mailto:ger...@ru...> www.medizinisches-proteom-center.de <http://www.medizinisches-proteom-center.de/> RUB Logo ANNOUNCEMENT de.NBI summer school September 2016: *Analysis of Mass-Spectrometric Data - * *Big Data Bioinformatics in Proteomics and Metabolomics* http://www.denbi.de/index.php/11-training-cat/95-lss2016 |
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From: Gerhard M. <not...@gi...> - 2016-06-08 14:19:53
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Closed #34. --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/34#event-685844968 |
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From: Gerhard M. <not...@gi...> - 2016-06-08 14:19:53
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Done in version 3.89.0 of psi-ms.obo --- You are receiving this because you are subscribed to this thread. Reply to this email directly or view it on GitHub: https://github.com/HUPO-PSI/mzIdentML/issues/34#issuecomment-224603987 |
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From: mayerg97 <ger...@ru...> - 2016-06-07 15:00:28
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Dear proteomics community, > > > attached there's the release candidate 3.90.0_rc1 of the psi-ms.obo file > containing new terms for the annotation of cross-linking files. > > New CV terms in version 3.90.0_rc1 of psi-ms.obo: > ================================================= > [Term] > id: MS:1002675 > name: cross-linking result details > def: "This subsection describes terms which can describe details of > cross-linking results." [PSI:PI] > relationship: part_of MS:1001000 ! spectrum interpretation > > [Term] > id: MS:1002676 > name: protein-pair-level global FDR > def: "Estimation of the global false discovery rate of proteins-pairs > in cross-linking experiments." [PSI:PI] > xref: value-type:xsd\:double "The allowed value-type for this CV term." > is_a: MS:1002675 ! cross-linking result details > relationship: has_domain MS:1002305 ! value between 0 and 1 inclusive > > [Term] > id: MS:1002677 > name: residue-pair-level global FDR > def: "Estimation of the global false discovery rate of residue-pairs > in cross-linking experiments." [PSI:PI] > xref: value-type:xsd\:double "The allowed value-type for this CV term." > is_a: MS:1002675 ! cross-linking result details > relationship: has_domain MS:1002305 ! value between 0 and 1 inclusive > > Best Regards, > Gerhard > > -- > > *--* > > *Dipl. Inform. med., Dipl. Wirtsch. **Inf. GERHARD MAYER* > > *PhD student* > > *Medizinisches Proteom-Center* > > *DEPARTMENT Medical Bioinformatics* > > *Building *ZKF E.049a | Universitätsstraße 150 | D-44801 Bochum > > *Fon *+49 (0)234 32-21006 | *Fax *+49 (0)234 32-14554 > > *E-mail***ger...@ru... > > www.medizinisches-proteom-center.de > > RUB Logo > > ANNOUNCEMENT de.NBI summer school September 2016: > > *Analysis of Mass-Spectrometric Data - * > > *Big Data Bioinformatics in Proteomics and Metabolomics* > > <http://www.denbi.de/index.php/11-training-cat/95-lss2016>http://www.denbi.de/index.php/11-training-cat/95-lss2016 > <http://www.denbi.de/index.php/11-training-cat/95-lss2016> |
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From: Gerhard M. <not...@gi...> - 2016-06-06 12:07:33
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--- You are receiving this because you are subscribed to this thread. View it on GitHub: https://github.com/HUPO-PSI/mzIdentML/releases/tag/mzIdentMLValidator_GUI_v1.4.18-SNAPSHOT |
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