search for: proteom

Can anyone explain the following behavior to me? [jgreen at t-rex ~]$ nslookup proteome.hpcc.triad.local Server: 127.0.0.1 Address: 127.0.0.1#53 Name: proteome.hpcc.triad.local Address: 10.2.149.1 [jgreen at t-rex ~]$ nslookup proteome.vlan88.hpcc.triad.local Server: 127.0.0.1 Address: 127.0.0.1#53 Name: proteome.vlan88.hpcc.triad.local Address: 192...

...data/DefaultReaderList.o ./pwiz/data/identdata/Reader.o ./pwiz/data/identdata/Serializer_protXML.o ./pwiz/data/identdata/Serializer_pepXML.o ./pwiz/data/identdata/Serializer_mzid.o ./pwiz/data/identdata/IO.o ./pwiz/data/identdata/References.o ./pwiz/data/identdata/MascotReader.o ./pwiz/data/proteome/Modification.o ./pwiz/data/proteome/Digestion.o ./pwiz/data/proteome/Peptide.o ./pwiz/data/proteome/AminoAcid.o ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o ./pwiz/utility/chemistry/Chemistry.o ./pwiz/utility/chemistry/ChemistryData.o ./pwiz/utility/chemistry/MZT...

...gt;> ./pwiz/data/identdata/Serializer_protXML.o >> ./pwiz/data/identdata/Serializer_pepXML.o >> ./pwiz/data/identdata/Serializer_mzid.o >> ./pwiz/data/identdata/IO.o >> ./pwiz/data/identdata/References.o >> ./pwiz/data/identdata/MascotReader.o >> ./pwiz/data/proteome/Modification.o >> ./pwiz/data/proteome/Digestion.o >> ./pwiz/data/proteome/Peptide.o >> ./pwiz/data/proteome/AminoAcid.o >> ./pwiz/utility/minimxml/XMLWriter.o >> ./pwiz/utility/minimxml/SAXParser.o >> ./pwiz/utility/chemistry/Chemistry.o >> ./pwiz/util...

Hello all, due to unexplained differences between statistical results from collaborators and our lab that arose in the same large proteomics dataset we reevaluated the t.test() function. Here, we found a weird behaviour that is also reproducible in the following small test dataset: Suppose, we have two vectors with numbers and some missing values that refer to the same individuals and that should therefore be evaluated with a p...

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 through Google for a couple o...

...rList.o ./pwiz/data/identdata/Reader.o > ./pwiz/data/identdata/Serializer_protXML.o > ./pwiz/data/identdata/Serializer_pepXML.o > ./pwiz/data/identdata/Serializer_mzid.o ./pwiz/data/identdata/IO.o > ./pwiz/data/identdata/References.o ./pwiz/data/identdata/MascotReader.o > ./pwiz/data/proteome/Modification.o ./pwiz/data/proteome/Digestion.o > ./pwiz/data/proteome/Peptide.o ./pwiz/data/proteome/AminoAcid.o > ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o > ./pwiz/utility/chemistry/Chemistry.o > ./pwiz/utility/chemistry/ChemistryData.o > ./pwiz/util...

...o by some active developers. Is this true? Do new style classes have an active future? Is R committed to them? Insightful? I use old-style (S version3 engine) and new-style (S version4) classes in the sense of Venables and Ripley. ------------------------------------- Dr Jonathan Swinton Proteom Ltd Babraham Hall Babraham Cambridge CB2 4AT www.proteom.com -----------------------------------

...o by some active developers. Is this true? Do new style classes have an active future? Is R committed to them? Insightful? I use old-style (S version3 engine) and new-style (S version4) classes in the sense of Venables and Ripley. ------------------------------------- Dr Jonathan Swinton Proteom Ltd Babraham Hall Babraham Cambridge CB2 4AT www.proteom.com -----------------------------------

...://cran.r-project.org/web/packages/bst/index.html The order of vignette links on CRAN is different from what I hoped for: > vignette(package="bst") Vignettes in package 'bst': pros Cancer Classification Using Mass Spectrometry-based Proteomics Data (source, pdf) static_khan Classification of Cancer Types Using Gene Expression Data (Long) (source, pdf) khan Classification of Cancer Types Using Gene Expression Data (Short) (source, pdf...

Hi I am trying to get a table of means of parameter 1 across BINS of parameter 2. I am working in proteomics and a sample of my data is as follows cluster-age clock-rate(evolutionary rate) scopclass 0.002 10 A 0.045 0.1 B 0.13 15 A 0.15 34 D .... .... .... .......

...ough commas ",". But every time I do the match between the first and second data frame it returns out FALSE for every gene in every function. Can anyone please give me a hind how to handle the problem? Thank you very much in advance! Paul -- Paul C. Schröder PhD-Student Division of Proteomics, Genomics & Bioinformatics Center for Applied Medicine (CIMA) University of Navarra Avda. Pio XII, 55 E-31008 Pamplona, Spain Tel: +34 948 194700, ext 5023 email: pschrode@alumni.unav.es [[alternative HTML version deleted]]

I have to compare four different grape varieties proteome in two different years. I don't know what test would be more suitable for my data. I think that an anova two way can be usefull also if someone suggested me to perform a manova. In addiction, I can perform each test on a single protein a time, but I can't loose my whole life carrying out a...

Hello, everyone! I have a set of proteomic data .And I do a solexa sequencing in the corresponding sample. So I get much mass sequencing data. How can I using R to integrate those two set data. I wonder if some tool or R package would help me? Thank you ! [[alternative HTML version deleted]]

...ader file (*.h) somewhere from the R installation??? Any help to get a C or C++ implementation of these clustering algorithms would be very welcome. Thanks for your help. Johnny ~~~~~~~~~~~~~~~~~~~~~~~~~~~ Jean-Eudes DAZARD, PhD. Assistant Professor Bioinformatics Division Center for Proteomics and Bioinformatics School Of Medicine, BRB 936 Case Western Reserve University 10900 Euclid Avenue CLEVELAND, OHIO 44106 - 4988 Tel : 1-216-368-3157 Fax : 1-216-368-6846 e-mail : jxd101@case.edu ~~~~~~~~~~~~~~~~~~~~~~~~~~~ [[alternative HTML version deleted]]

Hi, is there a way to color the branches or text label of the branches of dendrograms e.g. from hclust() according to a grouping variable. Here I have something in mind like: http://www.sigmaaldrich.com/content/dam/sigma-aldrich/life-science/biowire/biowire-fall-2010/proteome-figure-1.Par.0001.Image.gif (ectodermal, endodermal, mesodermal). /johannes

Dear all , I would like to reconstruct coexpression networks from proteomic count data having integer values. Some internal function doesn't like to work well with integers. How can this error be rectified? > adjacency = adjacency(datExpr, power = softPower, type = "signed"); Error in cor(datExpr, use = "p") : REAL() can only be applied to a...

.../index.html > > The order of vignette links on CRAN is different from what I hoped for: > > > vignette(package="bst") > Vignettes in package 'bst': > > pros Cancer Classification Using Mass > Spectrometry-based Proteomics Data (source, > pdf) > static_khan Classification of Cancer Types Using Gene > Expression Data (Long) (source, pdf) > khan Classification of Cancer Types Using Gene > Expressi...

...ELEASE PROVIDE? ======================================== All packages from the 1.3 release are included. All current bug fixes have been applied, and most have upgraded and provide enhanced functionality. SOME OF THE MAJOR UPGRADES FOR RELEASE 1.4: =========================================== -- Proteomics (PROcess, gpls, apComplex) -- Array CGH (DNAcopy, aCGH) -- Cell cycle analysis (GeneTS) -- Packages for lab assay analysis and management (prada) -- Agilent arrays handling in limma -- Annotation tools (Resourcer, GOstat, goTools, ontoTools) -- Improved interfaces (limmaGUI, affylmGUI, web...

...card development Loss management in insurance Financial Markets Modeling Stock Selection and Portfolio Management Business Cycle Forecasting Telecommunications Churn modeling Collections management Fraud detection Bioinformatics, Healthcare and Medicine DNA Microarray Data Analysis Proteomics Drug Discovery Web Mining and Text Mining User profiling Recommendation Systems Learning from Designed Experiments eCommerce Engineering, Manufacturing, and Quality Control Semiconductor quality control Public Sector, Defense, Security Papers may have a methological focus an...

...he only workaround I found is to use/modify the global weights using <<- (not very satisfying). What did I wrong? And what should I do to get it work (i.e. using the copy of weights defined inside the function)? Thanks in advance for your help. Xavier Robin -- Xavier Robin Biomedical Proteomics Research Group (BPRG) Department of Structural Biology and Bioinformatics (DBSB) Geneva University Medical Center (CMU) 1, rue Michel Servet - CH-1211 Gen?ve 4 - Switzerland Tel: (+41 22) 379 53 21