Mercurial > repos > galaxyp > peptideshaker
diff test-data/peptideshaker_reports_output_certificate.txt @ 55:bb0130ff73ce draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit f27e376ff604cd8faf57c63f25ddcfd61ca9db6a"
| author | galaxyp |
|---|---|
| date | Fri, 15 Jan 2021 14:06:27 +0000 |
| parents | |
| children | 07ff622ec007 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/peptideshaker_reports_output_certificate.txt Fri Jan 15 14:06:27 2021 +0000 @@ -0,0 +1,79 @@ + +Project Details + +1: PeptideShaker Version: 2.0.2 +2: Date: Thu Nov 19 10:47:40 CET 2020 +3: Experiment: Galaxy_Experiment_2020111910471605779259 +4: Sample: Not implemented +5: Replicate Number: Not implemented +6: Identification Algorithms: OMSSA, X!Tandem and MS-GF+ + +Database Search Parameters + +1: Precursor Tolerance Unit: ppm +2: Precursor Ion m/z Tolerance: 10.0 +3: Fragment Ion Tolerance Unit: Da +4: Fragment Ion m/z Tolerance: 0.5 +5: Cleavage: Enzyme +6: Enzyme: Trypsin +7: Missed Cleavages: 2 +8: Specificity: Specific +9: Database: input_fasta_file.fasta +10: Forward Ion: 1 +11: Rewind Ion: 4 +12: Fixed Modifications: +13: Variable Modifications: +14: Refinement Variable Modifications: +15: Refinement Fixed Modifications: + +Input Filters + +1: Minimal Peptide Length: 8 +2: Maximal Peptide Length: 30 +3: Precursor m/z Tolerance: 10.0 +4: Precursor m/z Tolerance Unit: Yes +5: Unrecognized Modifications Discarded: Yes + +Validation Summary + +1: Proteins: #Validated: 4.0 +2: Proteins: Total Possible TP: 4.0 +3: Proteins: FDR Limit [%]: 0.0 +4: Proteins: FNR Limit [%]: 0.0 +5: Proteins: Confidence Limit [%]: 100.0 +6: Proteins: PEP Limit [%]: 100.0 +7: Proteins: Confidence Accuracy [%]: 9.223372036854776E16 +8: Peptides: #Validated: 4.0 +9: Peptides: Total Possible TP: 4.0 +10: Peptides: FDR Limit [%]: 0.0 +11: Peptides: FNR Limit [%]: 0.0 +12: Peptides: Confidence Limit [%]: 100.0 +13: Peptides: PEP Limit [%]: 0.0 +14: Peptides: Confidence Accuracy [%]: 9.223372036854776E16 +15: PSMs: #Validated PSM: 6.0 +16: PSMs: Total Possible TP: 6.0 +17: PSMs: FDR Limit [%]: 0.0 +18: PSMs: 0.0 +19: PSMs: Confidence Limit [%]: 100.0 +20: PSMs: PEP Limit [%]: 0.0 +21: PSMs: Confidence Accuracy [%]: 9.223372036854776E16 + +PTM Scoring Settings + +1: Probabilistic Score: PhosphoRS +2: Accounting for Neutral Losses: No +3: Threshold: 95.0 + +Spectrum Counting Parameters + +1: Method: NSAF +2: Validated Matches Only: Doubtful + +Annotation Settings + +1: Intensity Limit: 0.75 +2: Automatic Annotation: Yes +3: Selected Ions: b, y +4: Neutral Losses: H2O, NH3 +5: Neutral Losses Sequence Dependence: Yes +6: Fragment Ion m/z Tolerance: 10.0