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01-MaCProQC

MaCProQCMass speCtrometry proteomics quality control This is the locally runnable version of the workflow.It consists of two workflows: this file and the "download_and_analyze_raw_file", which actually performs most of the work.Requirements:- mono- ThermoRawFileParser- Mascot server installationSettings:In this and the "download_and_analyze_raw_file" are some settings highlighted by corresponding annotations which need adjustment. Settings:Adjust some basic parameters of theworkflow in the "Java edit variable" .Add the to be processed files in the"Input files" node, and thecorresponding FASTA for identificationindexing in the "Input files" node (thismust be the same like the selected DBon the Mascot server). presets...database as FASTAfiles to process(Thermo raw or mzML)Node 663Node 664Node 668Node 669Node 670Node 671Node 672Node 673Node 674Node 676Node 677Node 678Java Edit Variable final view Input File Input Files Port to URI Chunk Loop Start Port to URI Column Rename Column Rename Column Appender Loop End Call Workflow(Table Based) URL to File Path Column Filter URL to File Path Column Filter MaCProQCMass speCtrometry proteomics quality control This is the locally runnable version of the workflow.It consists of two workflows: this file and the "download_and_analyze_raw_file", which actually performs most of the work.Requirements:- mono- ThermoRawFileParser- Mascot server installationSettings:In this and the "download_and_analyze_raw_file" are some settings highlighted by corresponding annotations which need adjustment. Settings:Adjust some basic parameters of theworkflow in the "Java edit variable" .Add the to be processed files in the"Input files" node, and thecorresponding FASTA for identificationindexing in the "Input files" node (thismust be the same like the selected DBon the Mascot server). presets...database as FASTAfiles to process(Thermo raw or mzML)Node 663Node 664Node 668Node 669Node 670Node 671Node 672Node 673Node 674Node 676Node 677Node 678Java Edit Variable final view Input File Input Files Port to URI Chunk Loop Start Port to URI Column Rename Column Rename Column Appender Loop End Call Workflow(Table Based) URL to File Path Column Filter URL to File Path Column Filter

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On NodePit since: 2022-05-06
Last update: 2024-12-17
Created with KNIME version: v4.5.2

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