| Next changeset 1:1facef3ba64a (2022-04-27) |
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"planemo upload commit 8feeae9c62e2026c018e970bb2252e75e1433058" |
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added:
README.md isa2w4m.py isa2w4m.xml test-data/MTBLS30-w4m-sample-metadata.tsv test-data/MTBLS30-w4m-sample-variable-matrix.tsv test-data/MTBLS30-w4m-variable-metadata.tsv test-data/MTBLS30.zip test-data/mtbls30.html |
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| diff -r 000000000000 -r 1883d5274962 README.md --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/README.md Wed Jan 08 09:56:00 2020 -0500 |
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| @@ -0,0 +1,13 @@ +# ISA2W4M + +[](https://travis-ci.org/workflow4metabolomics/isa2w4m) + +Convert an ISA study into the 3 TSV files format of W4M. + +## Updates + +### 1.1.1 + + * Correct planemo test. + * Run tests in Travis-CI. + |
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| diff -r 000000000000 -r 1883d5274962 isa2w4m.py --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/isa2w4m.py Wed Jan 08 09:56:00 2020 -0500 |
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| @@ -0,0 +1,8 @@ +#!/usr/bin/env python3 + +from isatools.convert import isatab2w4m +import warnings + +with warnings.catch_warnings(): + warnings.simplefilter("ignore") + isatab2w4m.main() |
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| diff -r 000000000000 -r 1883d5274962 isa2w4m.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/isa2w4m.xml Wed Jan 08 09:56:00 2020 -0500 |
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| @@ -0,0 +1,130 @@ +<!-- vi: se fdm=marker : --> +<tool id="isa2w4m" name="ISA to W4M" version="1.1.1"> + + <description>Convert ISA data type into W4M format</description> + + <requirements> + <requirement type="package" version="0.10.3">isatools</requirement> + </requirements> + + <!-- Command {{{1 --> + + <command><![CDATA[ + ## @@@BEGIN_CHEETAH@@@ + + $__tool_directory__/isa2w4m.py + -i "$isa.extra_files_path" + -s "$w4m_sample_metadata" + -v "$w4m_variable_metadata" + -m "$w4m_data_matrix" + + ## Choose study to output + #if $study: + -n "$study" + #end if + + ## Choose assay to output + #if $assay: + -f "$assay" + #end if + + ## Filtering + #if $sample_na_filtering: + -S "$sample_na_filtering" + #end if + #if $variable_na_filtering: + -V "$variable_na_filtering" + #end if + + ## @@@END_CHEETAH@@@ + ]]></command> + + <!-- Inputs {{{1 --> + + <inputs> + <param name="isa" label="ISA" type="data" format="isa-tab"/> + <param name="study" type="text" size="256" value="" help="Type here the name of the assay file you want to extract from the ISA archive. If unset, the first listed study will be used."/> + <param name="assay" type="text" size="256" value="" help="Type here the name of the study file you want to extract from the ISA archive. If unset, the first listed assay in the study will be used"/> + <param name="sample_na_filtering" type="text" label="Sample metadata columns NA filtering" help="The rows that contain NA value in the specified columns will be filtered out. Column names must be separated by commas."/> + <param name="variable_na_filtering" type="text" label="Variable metadata columns NA filtering" help="The rows that contain NA value in the specified columns will be filtered out. Column names must be separated by commas."/> + </inputs> + + <!-- Outputs {{{1 --> + + <outputs> + <data name="w4m_variable_metadata" label="${isa.name} W4M var" format="tabular"/> + <data name="w4m_sample_metadata" label="${isa.name} W4M samp" format="tabular"/> + <data name="w4m_data_matrix" label="${isa.name} W4M data" format="tabular"/> + </outputs> + + <!-- Tests {{{1 --> + <tests> + <test> + <param name="isa" value="MTBLS30.zip" ftype="isa-tab"/> + <output name="w4m_variable_metadata" file="MTBLS30-w4m-variable-metadata.tsv"/> + <output name="w4m_sample_metadata" file="MTBLS30-w4m-sample-metadata.tsv"/> + <output name="w4m_data_matrix" file="MTBLS30-w4m-sample-variable-matrix.tsv"/> + </test> + </tests> + + <!-- Help {{{1 --> + <help> +<!-- @@@BEGIN_RST@@@ --> + +==================== +ISA to W4M converter +==================== + +Converts an ISA-Tab dataset into W4M 3 files format. + +------ +Inputs +------ + +ISA dataset +=========== + +The ISA-Tab dataset to convert to W4M format. + +Study to extract +================ + +The file name of the study to extract from the ISA dataset. + +Assay to extract +================ + +The file name of the assay to extract from the ISA dataset chosen study. + +Sample NA filtering +=================== + +This is a comma separated list of column names from the sample metadata dataset. +Rows containg NA values in one or more of the listed columns will be removed from the dataset. + +Variable NA filtering +===================== + +This is a comma separated list of column names from the variable metadata dataset. +Rows containg NA values in one or more of the listed columns will be removed from the dataset. + +------- +Outputs +------- + +The output is a set of 3 datasets: + + - Samples metadata. + - Variables metadata. + - Samples x variables matrix. + +<!-- @@@END_RST@@@ --> + </help> + + <!-- Citations {{{1 --> + <citations> + <citation type="doi">10.1038/ng.1054</citation> <!-- ISA --> + <citation type="doi">10.1093/bioinformatics/btu813</citation> <!-- W4M --> + </citations> + +</tool> |
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| diff -r 000000000000 -r 1883d5274962 test-data/MTBLS30-w4m-sample-metadata.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/MTBLS30-w4m-sample-metadata.tsv Wed Jan 08 09:56:00 2020 -0500 |
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| b'@@ -0,0 +1,241 @@\n+"sample.name"\t"Sample.Name"\t"Protocol.REF_x"\t"Parameter.Value.Post.Extraction."\t"Parameter.Value.Derivatization."\t"Extract.Name"\t"Protocol.REF.1"\t"Parameter.Value.Chromatography.Instrument."\t"Term.Source.REF_x"\t"Term.Accession.Number_x"\t"Parameter.Value.Column.model."\t"Parameter.Value.Column.type."\t"Labeled.Extract.Name"\t"Label"\t"Term.Source.REF.1_x"\t"Term.Accession.Number.1_x"\t"Protocol.REF.2"\t"Parameter.Value.Scan.polarity."\t"Parameter.Value.Scan.m.z.range."\t"Parameter.Value.Instrument."\t"Term.Source.REF.2_x"\t"Term.Accession.Number.2_x"\t"Parameter.Value.Ion.source."\t"Term.Source.REF.3_x"\t"Term.Accession.Number.3_x"\t"Parameter.Value.Mass.analyzer."\t"Term.Source.REF.4_x"\t"Term.Accession.Number.4_x"\t"MS.Assay.Name"\t"Raw.Spectral.Data.File"\t"Protocol.REF.3"\t"Normalization.Name"\t"Derived.Spectral.Data.File"\t"Protocol.REF.4"\t"Data.Transformation.Name"\t"Metabolite.Assignment.File"\t"Source.Name"\t"Characteristics.Organism."\t"Term.Source.REF_y"\t"Term.Accession.Number_y"\t"Characteristics.Variant."\t"Term.Source.REF.1_y"\t"Term.Accession.Number.1_y"\t"Characteristics.Organism.part."\t"Term.Source.REF.2_y"\t"Term.Accession.Number.2_y"\t"Protocol.REF_y"\t"Factor.Value.feeding."\t"Term.Source.REF.3_y"\t"Term.Accession.Number.3_y"\t"Factor.Value.tissue.source."\t"Term.Source.REF.4_y"\t"Term.Accession.Number.4_y"\t"Factor.Value.genotype."\t"Term.Source.REF.5"\t"Term.Accession.Number.5"\t"Factor.Value.replicate."\t"Term.Source.REF.6"\t"Term.Accession.Number.6"\n+"SRC.1....Fed_rep1_liver"\t"SRC-1-/- Fed_rep1_liver"\t"Extraction"\t"NA"\t"NA"\t"NA"\t"Chromatography"\t"Thermo Scientific TRACE GC Ultra"\t"NA"\t"NA"\t"DB-5 GC (1 \xc2\xb5m, 0.25 mm x 15 m; Agilent Technologies)"\t"low polarity"\t"NA"\t"NA"\t"NA"\t"NA"\t"Mass spectrometry"\t"positive"\t"NA"\t"Thermo Scientific TRACE DSQ"\t"NA"\t"NA"\t"electron ionization"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000389"\t"quadrupole"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000081"\t"SRC-1-/- Fed_rep1_liver"\t"NA"\t"Data transformation"\t"NA"\t"NA"\t"Metabolite identification"\t"NA"\t"m_york_src_GC_mass_spectrometry_v2_maf.tsv"\t"liver"\t"Mus musculus"\t"NCBITAXON"\t"http://purl.bioontology.org/ontology/NCBITAXON/10090"\t"C57BL/6J"\t"EFO"\t"http://www.ebi.ac.uk/efo/EFO_0000606"\t"liver"\t"BTO"\t"http://purl.obolibrary.org/obo/BTO_0000759"\t"Sample collection"\t"fed"\t"NA"\t"NA"\t"liver"\t"NA"\t"NA"\t"Src1 knockout"\t"NA"\t"NA"\t"1"\t"NA"\t"NA"\n+"SRC.1....Fed_rep2_liver"\t"SRC-1-/- Fed_rep2_liver"\t"Extraction"\t"NA"\t"NA"\t"NA"\t"Chromatography"\t"Thermo Scientific TRACE GC Ultra"\t"NA"\t"NA"\t"DB-5 GC (1 \xc2\xb5m, 0.25 mm x 15 m; Agilent Technologies)"\t"low polarity"\t"NA"\t"NA"\t"NA"\t"NA"\t"Mass spectrometry"\t"positive"\t"NA"\t"Thermo Scientific TRACE DSQ"\t"NA"\t"NA"\t"electron ionization"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000389"\t"quadrupole"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000081"\t"SRC-1-/- Fed_rep2_liver"\t"NA"\t"Data transformation"\t"NA"\t"NA"\t"Metabolite identification"\t"NA"\t"m_york_src_GC_mass_spectrometry_v2_maf.tsv"\t"liver"\t"Mus musculus"\t"NCBITAXON"\t"http://purl.bioontology.org/ontology/NCBITAXON/10090"\t"C57BL/6J"\t"EFO"\t"http://www.ebi.ac.uk/efo/EFO_0000606"\t"liver"\t"BTO"\t"http://purl.obolibrary.org/obo/BTO_0000759"\t"Sample collection"\t"fed"\t"NA"\t"NA"\t"liver"\t"NA"\t"NA"\t"Src1 knockout"\t"NA"\t"NA"\t"2"\t"NA"\t"NA"\n+"SRC.1....Fed_rep3_liver"\t"SRC-1-/- Fed_rep3_liver"\t"Extraction"\t"NA"\t"NA"\t"NA"\t"Chromatography"\t"Thermo Scientific TRACE GC Ultra"\t"NA"\t"NA"\t"DB-5 GC (1 \xc2\xb5m, 0.25 mm x 15 m; Agilent Technologies)"\t"low polarity"\t"NA"\t"NA"\t"NA"\t"NA"\t"Mass spectrometry"\t"positive"\t"NA"\t"Thermo Scientific TRACE DSQ"\t"NA"\t"NA"\t"electron ionization"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000389"\t"quadrupole"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000081"\t"SRC-1-/- Fed_rep3_liver"\t"NA"\t"Data transformation"\t"NA"\t"NA"\t"Metabolite identification"\t"NA"\t"m_york_src_GC_mass_spectrometry_v2_maf.tsv"\t"liver"\t"Mus musculus"\t"NCBITAXON"\t"http://purl.bioontology.org/ontology/NCBITAXON/10090"\t"C57BL/6J"\t"EFO"\t"http://www.ebi.ac.uk/efo/EFO_0000606"\t"liver"\t"BTO"\t"http://purl.obolib'..b'transformation"\t"NA"\t"NA"\t"Metabolite identification"\t"NA"\t"m_york_src_GC_mass_spectrometry_v2_maf.tsv"\t"brain"\t"Mus musculus"\t"NCBITAXON"\t"http://purl.bioontology.org/ontology/NCBITAXON/10090"\t"C57BL/6J"\t"EFO"\t"http://www.ebi.ac.uk/efo/EFO_0000606"\t"brain"\t"BTO"\t"http://purl.obolibrary.org/obo/BTO_0000142"\t"Sample collection"\t"fasted"\t"NA"\t"NA"\t"brain"\t"NA"\t"NA"\t"Src3 wild-type"\t"NA"\t"NA"\t"1"\t"NA"\t"NA"\n+"SRC.3....Fasted_rep2_brain.1"\t"SRC-3+/+ Fasted_rep2_brain"\t"Extraction"\t"NA"\t"NA"\t"NA"\t"Chromatography"\t"Thermo Scientific TRACE GC Ultra"\t"NA"\t"NA"\t"DB-5 GC (1 \xc2\xb5m, 0.25 mm x 15 m; Agilent Technologies)"\t"low polarity"\t"NA"\t"NA"\t"NA"\t"NA"\t"Mass spectrometry"\t"positive"\t"NA"\t"Thermo Scientific TRACE DSQ"\t"NA"\t"NA"\t"electron ionization"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000389"\t"quadrupole"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000081"\t"SRC-3+/+ Fasted_rep2_brain"\t"NA"\t"Data transformation"\t"NA"\t"NA"\t"Metabolite identification"\t"NA"\t"m_york_src_GC_mass_spectrometry_v2_maf.tsv"\t"brain"\t"Mus musculus"\t"NCBITAXON"\t"http://purl.bioontology.org/ontology/NCBITAXON/10090"\t"C57BL/6J"\t"EFO"\t"http://www.ebi.ac.uk/efo/EFO_0000606"\t"brain"\t"BTO"\t"http://purl.obolibrary.org/obo/BTO_0000142"\t"Sample collection"\t"fasted"\t"NA"\t"NA"\t"brain"\t"NA"\t"NA"\t"Src3 wild-type"\t"NA"\t"NA"\t"2"\t"NA"\t"NA"\n+"SRC.3....Fasted_rep3_brain.1"\t"SRC-3+/+ Fasted_rep3_brain"\t"Extraction"\t"NA"\t"NA"\t"NA"\t"Chromatography"\t"Thermo Scientific TRACE GC Ultra"\t"NA"\t"NA"\t"DB-5 GC (1 \xc2\xb5m, 0.25 mm x 15 m; Agilent Technologies)"\t"low polarity"\t"NA"\t"NA"\t"NA"\t"NA"\t"Mass spectrometry"\t"positive"\t"NA"\t"Thermo Scientific TRACE DSQ"\t"NA"\t"NA"\t"electron ionization"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000389"\t"quadrupole"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000081"\t"SRC-3+/+ Fasted_rep3_brain"\t"NA"\t"Data transformation"\t"NA"\t"NA"\t"Metabolite identification"\t"NA"\t"m_york_src_GC_mass_spectrometry_v2_maf.tsv"\t"brain"\t"Mus musculus"\t"NCBITAXON"\t"http://purl.bioontology.org/ontology/NCBITAXON/10090"\t"C57BL/6J"\t"EFO"\t"http://www.ebi.ac.uk/efo/EFO_0000606"\t"brain"\t"BTO"\t"http://purl.obolibrary.org/obo/BTO_0000142"\t"Sample collection"\t"fasted"\t"NA"\t"NA"\t"brain"\t"NA"\t"NA"\t"Src3 wild-type"\t"NA"\t"NA"\t"3"\t"NA"\t"NA"\n+"SRC.3....Fasted_rep4_brain.1"\t"SRC-3+/+ Fasted_rep4_brain"\t"Extraction"\t"NA"\t"NA"\t"NA"\t"Chromatography"\t"Thermo Scientific TRACE GC Ultra"\t"NA"\t"NA"\t"DB-5 GC (1 \xc2\xb5m, 0.25 mm x 15 m; Agilent Technologies)"\t"low polarity"\t"NA"\t"NA"\t"NA"\t"NA"\t"Mass spectrometry"\t"positive"\t"NA"\t"Thermo Scientific TRACE DSQ"\t"NA"\t"NA"\t"electron ionization"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000389"\t"quadrupole"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000081"\t"SRC-3+/+ Fasted_rep4_brain"\t"NA"\t"Data transformation"\t"NA"\t"NA"\t"Metabolite identification"\t"NA"\t"m_york_src_GC_mass_spectrometry_v2_maf.tsv"\t"brain"\t"Mus musculus"\t"NCBITAXON"\t"http://purl.bioontology.org/ontology/NCBITAXON/10090"\t"C57BL/6J"\t"EFO"\t"http://www.ebi.ac.uk/efo/EFO_0000606"\t"brain"\t"BTO"\t"http://purl.obolibrary.org/obo/BTO_0000142"\t"Sample collection"\t"fasted"\t"NA"\t"NA"\t"brain"\t"NA"\t"NA"\t"Src3 wild-type"\t"NA"\t"NA"\t"4"\t"NA"\t"NA"\n+"SRC.3....Fasted_rep5_brain.1"\t"SRC-3+/+ Fasted_rep5_brain"\t"Extraction"\t"NA"\t"NA"\t"NA"\t"Chromatography"\t"Thermo Scientific TRACE GC Ultra"\t"NA"\t"NA"\t"DB-5 GC (1 \xc2\xb5m, 0.25 mm x 15 m; Agilent Technologies)"\t"low polarity"\t"NA"\t"NA"\t"NA"\t"NA"\t"Mass spectrometry"\t"positive"\t"NA"\t"Thermo Scientific TRACE DSQ"\t"NA"\t"NA"\t"electron ionization"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000389"\t"quadrupole"\t"MS"\t"http://purl.obolibrary.org/obo/MS_1000081"\t"SRC-3+/+ Fasted_rep5_brain"\t"NA"\t"Data transformation"\t"NA"\t"NA"\t"Metabolite identification"\t"NA"\t"m_york_src_GC_mass_spectrometry_v2_maf.tsv"\t"brain"\t"Mus musculus"\t"NCBITAXON"\t"http://purl.bioontology.org/ontology/NCBITAXON/10090"\t"C57BL/6J"\t"EFO"\t"http://www.ebi.ac.uk/efo/EFO_0000606"\t"brain"\t"BTO"\t"http://purl.obolibrary.org/obo/BTO_0000142"\t"Sample collection"\t"fasted"\t"NA"\t"NA"\t"brain"\t"NA"\t"NA"\t"Src3 wild-type"\t"NA"\t"NA"\t"5"\t"NA"\t"NA"\n' |
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| diff -r 000000000000 -r 1883d5274962 test-data/MTBLS30-w4m-sample-variable-matrix.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/MTBLS30-w4m-sample-variable-matrix.tsv Wed Jan 08 09:56:00 2020 -0500 |
| b |
| b'@@ -0,0 +1,8 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|
| b |
| diff -r 000000000000 -r 1883d5274962 test-data/MTBLS30-w4m-variable-metadata.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/MTBLS30-w4m-variable-metadata.tsv Wed Jan 08 09:56:00 2020 -0500 |
| b |
| @@ -0,0 +1,8 @@ +"variable.name" "database_identifier" "chemical_formula" "smiles" "inchi" "metabolite_identification" "mass_to_charge" "fragmentation" "modifications" "charge" "retention_time" "taxid" "species" "database" "database_version" "reliability" "uri" "search_engine" "search_engine_score" "smallmolecule_abundance_sub" "smallmolecule_abundance_stdev_sub" "smallmolecule_abundance_std_error_sub" +"X" "CHEBI:78320" "C3H6O3" "CC(O)C(O)=O" "InChI=1S/C3H6O3/c1-2(4)3(5)6/h2,4H,1H3,(H,5,6)" "b-lactate" "NA" "NA" "NA" "NA" "NA" "NCBITAXON:http://purl.bioontology.org/ontology/NCBITAXON/10090" "Mus musculus" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" +"X.1" "CHEBI:32816" "C3H4O3" "CC(=O)C(O)=O" "InChI=1S/C3H4O3/c1-2(4)3(5)6/h1H3,(H,5,6)" "pyruvate" "NA" "NA" "NA" "NA" "NA" "NCBITAXON:http://purl.bioontology.org/ontology/NCBITAXON/10090" "Mus musculus" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" +"X.2" "CHEBI:15741" "C4H6O4" "OC(=O)CCC(O)=O" "InChI=1S/C4H6O4/c5-3(6)1-2-4(7)8/h1-2H2,(H,5,6)(H,7,8)" "succinate" "NA" "NA" "NA" "NA" "NA" "NCBITAXON:http://purl.bioontology.org/ontology/NCBITAXON/10090" "Mus musculus" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" +"X.3" "CHEBI:18012" "C4H4O4" "OC(=O)\C=C\C(O)=O" "InChI=1S/C4H4O4/c5-3(6)1-2-4(7)8/h1-2H,(H,5,6)(H,7,8)/b2-1+" "fumarate" "NA" "NA" "NA" "NA" "NA" "NCBITAXON:http://purl.bioontology.org/ontology/NCBITAXON/10090" "Mus musculus" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" +"X.4" "CHEBI:6650" "C4H6O5" "OC(CC(O)=O)C(O)=O" "InChI=1S/C4H6O5/c5-2(4(8)9)1-3(6)7/h2,5H,1H2,(H,6,7)(H,8,9)" "malate" "NA" "NA" "NA" "NA" "NA" "NCBITAXON:http://purl.bioontology.org/ontology/NCBITAXON/10090" "Mus musculus" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" +"X.5" "CHEBI:30915" "C5H6O5" "OC(=O)CCC(=O)C(O)=O" "InChI=1S/C5H6O5/c6-3(5(9)10)1-2-4(7)8/h1-2H2,(H,7,8)(H,9,10)" "ketoglutarate" "NA" "NA" "NA" "NA" "NA" "NCBITAXON:http://purl.bioontology.org/ontology/NCBITAXON/10090" "Mus musculus" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" +"X.6" "CHEBI:30769" "C6H8O7" "OC(=O)CC(O)(CC(O)=O)C(O)=O" "InChI=1S/C6H8O7/c7-3(8)1-6(13,5(11)12)2-4(9)10/h13H,1-2H2,(H,7,8)(H,9,10)(H,11,12)" "citrate" "NA" "NA" "NA" "NA" "NA" "NCBITAXON:http://purl.bioontology.org/ontology/NCBITAXON/10090" "Mus musculus" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" "NA" |
| b |
| diff -r 000000000000 -r 1883d5274962 test-data/MTBLS30.zip |
| b |
| Binary file test-data/MTBLS30.zip has changed |
| b |
| diff -r 000000000000 -r 1883d5274962 test-data/mtbls30.html --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/mtbls30.html Wed Jan 08 09:56:00 2020 -0500 |
| b |
| @@ -0,0 +1,19 @@ +<html> + <header> + <title>Metabolights study</title> + </header> + <body> + <a href="i_Investigation.txt">Investigation file</a><br/> +<br/> + Study files:<br/> + <a href="s_York_SRC_metabolomics.txt">s_York_SRC_metabolomics.txt</a><br/> +<br/> + Assay files:<br/> + <a href="a_york_src_GCMS_metabolomics_metabolite profiling_mass spectrometry.txt">a_york_src_GCMS_metabolomics_metabolite profiling_mass spectrometry.txt</a><br/> + <a href="a_york_src_LCMS_metabolomics_metabolite profiling_mass spectrometry.txt">a_york_src_LCMS_metabolomics_metabolite profiling_mass spectrometry.txt</a><br/> +<br/> + Data files:<br/> + <a href="m_york_src_GCMS_metabolomics_metabolite profiling_mass spectrometry_v2_maf.tsv">m_york_src_GCMS_metabolomics_metabolite profiling_mass spectrometry_v2_maf.tsv</a><br/> + <a href="m_york_src_LCMS_metabolomics_metabolite profiling_mass spectrometry_v2_maf.tsv">m_york_src_LCMS_metabolomics_metabolite profiling_mass spectrometry_v2_maf.tsv</a><br/> + </body> +</html> |