annotate test-data/single/combined/txt/mzTab.mzTab @ 1:8bac3cc5c5de draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit ab4e4f1817080cbe8a031a82cb180610ff140847

MTD	mzTab-version	1.0.0
MTD	mzTab-mode	Complete
MTD	mzTab-type	Identification
MTD	title	null
MTD	description	null
MTD	software[1]	[MS, MS:1001583, MaxQuant,1.6.3.4]
COM	[, CHEMMOD:57.0214637236, Carbamidomethyl (C),]	
MTD	fixed_mod[1]	[, , CHEMMOD:57.0214637236,]
MTD	fixed_mod[1]-site	C
MTD	fixed_mod[1]-position	Anywhere
COM	[, CHEMMOD:15.9949146221, Oxidation (M),]	
MTD	variable_mod[1]	[, , CHEMMOD:15.9949146221,]
MTD	variable_mod[1]-site	M
MTD	variable_mod[1]-position	Anywhere
MTD	protein_search_engine_score[1]	[MS, MS:1002375, protein group-level combined FDRscore, ]
MTD	peptide_search_engine_score[1]	[MS, MS:1001250, local FDR, ]
MTD	psm_search_engine_score[1]	[MS, MS:1002338, Andromeda:score,  ]
MTD	psm_search_engine_score[2]	[MS, MS:1002995, Andromeda:PEP,  ]
MTD	ms_run[1]-format	[MS, MS:1002996, Andromeda:apl file format, ]
MTD	ms_run[1]-location	file://d:/shared/dglaetzer/maxquant_tool/test1/combined/andromeda/allspectra.cid.ftms.secpep.sil0_0.apl
MTD	ms_run[1]-id_format	[MS, MS:1000776, scan number only nativeID format, ]
MTD	ms_run[2]-format	[MS, MS:1002996, Andromeda:apl file format, ]
MTD	ms_run[2]-location	file://d:/shared/dglaetzer/maxquant_tool/test1/combined/andromeda/allspectra.cid.ftms.iso_0.apl
MTD	ms_run[2]-id_format	[MS, MS:1000776, scan number only nativeID format, ]

PRH	accession	description	taxid	species	database	database_version	search_engine	best_search_engine_score[1]	search_engine_score[1]_ms_run[1]	search_engine_score[1]_ms_run[2]	num_psms_ms_run[1]	num_psms_ms_run[2]	num_peptides_distinct_ms_run[1]	num_peptides_distinct_ms_run[2]	num_peptides_unique_ms_run[1]	num_peptides_unique_ms_run[2]	ambiguity_members	modifications	protein_coverage	opt_global_cv_MS:1002217_decoy_peptide 
PRT	CON__P02769	null	null	null	null	null	[MS, MS:1002337, Andromeda, 1.6.3.4]	6.33205607832812	null	null	null	null	null	null	null	null	CON__P02769, bsa, CON__P02768-1	null	0.012	0
PRT	CON__ENSEMBL:ENSBTAP00000001528	null	null	null	null	null	[MS, MS:1002337, Andromeda, 1.6.3.4]	5.93746772688895	null	null	null	null	null	null	null	null	CON__ENSEMBL:ENSBTAP00000001528	null	0.008	0
PRT	CON__ENSEMBL:ENSBTAP00000016046	null	null	null	null	null	[MS, MS:1002337, Andromeda, 1.6.3.4]	5.97677849538172	null	null	null	null	null	null	null	null	CON__ENSEMBL:ENSBTAP00000016046	null	0.01	0
PRT	CON__ENSEMBL:ENSBTAP00000018574	null	null	null	null	null	[MS, MS:1002337, Andromeda, 1.6.3.4]	5.95544937626172	null	null	null	null	null	null	null	null	CON__ENSEMBL:ENSBTAP00000018574	null	0.016	0
PRT	CON__Q03247	null	null	null	null	null	[MS, MS:1002337, Andromeda, 1.6.3.4]	5.93746772688895	null	null	null	null	null	null	null	null	CON__Q03247	null	0.025	0
PRT	CON__Q14CN4-1	null	null	null	null	null	[MS, MS:1002337, Andromeda, 1.6.3.4]	6.1237531147968	null	null	null	null	null	null	null	null	CON__Q14CN4-1, CON__Q3SY84, CON__Q9R0H5	null	0.016	0

PSH	sequence	PSM_ID	accession	unique	database	database_version	search_engine	search_engine_score[1]	search_engine_score[2]	modifications	retention_time	charge	exp_mass_to_charge	calc_mass_to_charge	spectra_ref	pre	post	start	end	opt_global_cv_MS:1000776_scan_number_only_nativeID_format	opt_global_cv_MS:1002217_decoy_peptide 
PSM	DSFDIIK	1	CON__ENSEMBL:ENSBTAP00000016046	1	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	0	0.010549248059121	null	0.570428333333333	2	419.22	419.22127	ms_run[2]:index=5	R	R	646	652	96	0
PSM	LLESEECR	2	CON__Q14CN4-1	0	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	1.63126590808724	0.00752050293704335	null	0.509571666666667	2	518.24	518.24241	ms_run[2]:index=13	K	M	430	437	86	0
PSM	LLESEECR	2	CON__Q3SY84	0	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	1.63126590808724	0.00752050293704335	null	0.509571666666667	2	518.24	518.24241	ms_run[2]:index=13	K	M	430	437	86	0
PSM	LLESEECR	2	CON__Q9R0H5	0	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	1.63126590808724	0.00752050293704335	null	0.509571666666667	2	518.24	518.24241	ms_run[2]:index=13	K	M	430	437	86	0
PSM	LVTDLTK	3	CON__P02769	0	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	0	0.00465525978542915	null	0.0100133333333333	2	395.24	395.23946	ms_run[2]:index=4	K	V	257	263	2	0
PSM	LVTDLTK	3	bsa	0	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	0	0.00465525978542915	null	0.0100133333333333	2	395.24	395.23946	ms_run[2]:index=4	K	V	257	263	2	0
PSM	LVTDLTK	3	CON__P02768-1	0	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	0	0.00465525978542915	null	0.0100133333333333	2	395.24	395.23946	ms_run[2]:index=4	K	V	257	263	2	0
PSM	QLELEKQLEK	4	CON__ENSEMBL:ENSBTAP00000001528	1	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	0	0.0115486780155693	null	0.570428333333333	3	419.91	419.90648	ms_run[1]:index=5	R	Q	408	417	96	0
PSM	SLSAIRER	5	CON__Q03247	1	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	0	0.0115486780155693	null	0.0965533333333333	2	466.27	466.26962	ms_run[1]:index=2	R	F	190	197	17	0
PSM	TLGPWGQR	6	CON__ENSEMBL:ENSBTAP00000018574	1	null	null	[MS, MS:1002338, Andromeda:score, 1.6.3.4]	0	0.0110802771561295	null	0.425933333333333	2	457.75	457.74578	ms_run[2]:index=9	R	D	20	27	72	0