search for: mzxml

Hi, Consider the following code: require(XML) xmlFile = paste( "<?xml version=\"1.0\" encoding=\"ISO-8859-1\"?>\n", "<mzXML xmlns=\"a\" xmlns:xsi=\"b\" xsi:schemaLocation=\"c\">\n", "<parentFile a=\"a\" b=\"b\" />\n", "</mzXML>\n") cat(xmlFile) a = function(x,...){ cat("Attributes of &q...

Hi Everyone, So I've been working a little with mzxml files generated from proteomics data. The current packages available to read these are not sufficient for what I am doing and I would like to build my own. The trouble I am having is how do I read in an mzxml file without the available packages (like reading in a table). I've been searching...

...library collection of generic functions into a new package "caTools". This package, which might be useful to broader group, is much smaller than "caMassClass" and has fewer dependencies. Other changes include: - Adding to "caMassClass" support for reading and writing mzXML data - a standard for storing proteomics MS data. - Adding more error checking to 'runmean', 'runmin', 'runmax', 'runmad' & 'runquantile' functions - Writing 3 new functions for round-off-error free sumation: 'sum.exact', 'cumsum.exact' a...

...library collection of generic functions into a new package "caTools". This package, which might be useful to broader group, is much smaller than "caMassClass" and has fewer dependencies. Other changes include: - Adding to "caMassClass" support for reading and writing mzXML data - a standard for storing proteomics MS data. - Adding more error checking to 'runmean', 'runmin', 'runmax', 'runmad' & 'runquantile' functions - Writing 3 new functions for round-off-error free sumation: 'sum.exact', 'cumsum.exact' a...

Dear list, My name is Juan Fernandez-Tajes and I´m trying to use MALDIquant for analysing MS data from ABI 4700 series, I´ve exported a spot set to T2Dextractor in order to convert in mzXML format. I´ve imported this into R with mqReadMzXml function and have followed the suggested flowchart, however when I´m in the step for peak detections I obtained the following error: peaks <- detectPeaks(spec, SNR = 2) Error en embed(object@intensity, windowSize) : wrong embedding dimension...