User: Jitao David Zhang

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10 years, 11 months ago
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Posts by Jitao David Zhang

<prev • 35 results • page 1 of 4 • next >
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Answer: A: Reading species specific IntAct files with RpsiXML gives unexpectedly low number
... Hi, it seems indeed strange. I will look into it early next week and get back to you. Best, David       ...
written 2.8 years ago by Jitao David Zhang340
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Comment: C: ddCt isn't working with exported ABI7500-RT-PACR file
... Hi dear Fadi, The ddCt package currently only supports SDS format converted to TXT file format. HTqPCR should do the job - we will consider implementing the functionality in ddCt as well. Best wishes, David 2011/12/1 Alnaji, Fadi > Deam Jim, thanks a lot. > > I'll try this out and ...
written 8.0 years ago by Jitao David Zhang340
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Answer: A: KEGGgraph
... Hi dear Jian, This is due to the old dependency of KEGGgraph on the Rgraphviz package. It is solved in the devel version. Please try to re-install the Rgraphviz package, or update to the devel version of KEGGgraph. Best wishes, David Am schrieb Jing Huang : > Hi, > I am trying to run KEG ...
written 8.4 years ago by Jitao David Zhang340
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Comment: C: Question about package "RpsiXML", URL as input for parsePsimi25Interaction()
... Thanks for the tips of Dan! For the first question, you have to pull down the files of PPI data from different servers. For the second question, it seems to be a problem of parsing. I will check the file and try to fix the problem if possible. Thanks for reporting the issue, Jitao David Zhang 2 ...
written 8.9 years ago by Jitao David Zhang340
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Comment: C: Fwd: KEGGgraph / Rgraphviz dot layout
... Hi dear Kristian, Guessing blindly... font seems to be too much large, and try fixedsize=TRUE? If not it might be a 'dot' specific problem? I don't know, since I have almost usually always used other layouts. In extreme case (really...) you could try to output the graph file and edit it somewhere ...
written 8.9 years ago by Jitao David Zhang340
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Answer: A: Fwd: KEGGgraph / Rgraphviz dot layout
... Hi dear Kristian, Try 'makeNodeAttrs' function (Rgraphviz). If you are interested, you can have a look at the source file (Rnw) of KEGGGgraphApp.Rnw shipped along with the KEGGgraph package (/inst/doc/KEGGgraphApp.Rnw), there you may find how to use it. For the width and height, some experienc ...
written 8.9 years ago by Jitao David Zhang340
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Comment: C: KEGGgraph help
... Hi dear Yan Jiao, Well, then it must be the problem of Rgraphviz. You may have to turn to the maintainers of Rgraphviz (help(package=Rgraphviz)). Before that, check out the installation of Rgraphviz as well as the documentation of the package. In case the question still exists, please tell me. Pau ...
written 9.0 years ago by Jitao David Zhang340
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Comment: C: KEGGgraph help
... Hi dear Yan, Maybe give a try to draw a toy network V <- letters[1:10] M <- 1:4 g1 <- randomGraph(V, M, 0.2) plot(g1) Is is okay? Cheers, David 2010/11/29 Yan Jiao > sessionInfo() > > R version 2.12.0 (2010-10-15) > > Platform: i386-pc-mingw32/i386 (32-bit) > > &g ...
written 9.0 years ago by Jitao David Zhang340
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Answer: A: KEGGgraph help
... please report sessionInfo() results. Currently I have no clue. It might be caused by corrupt graphviz, but I am not sure. Best wishes, David 2010/11/29 Yan Jiao > Dear all, > > > > I managed reading in a kegg graph > > > > A graphNEL graph with directed edges > > ...
written 9.0 years ago by Jitao David Zhang340
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Answer: A: (no subject)
... Hi dear Yan, You could manually download the file from KEGG server, in case wget does not work out of any reason. Note that system.file function only provides the possibility to access the file delivered together with the package, but not the ones that you download after the installation of KEGGg ...
written 9.0 years ago by Jitao David Zhang340

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