User: anamaria

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anamaria0
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Posts by anamaria

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Comment: C: Issue with xml files downloaded with `pathview()`
... Thank you Luo, your example made me realise my stupid mistake -- instead of KEGG id, I was passing the full pathway name to `pathview()` , e.g. "hsa04622 RIG-I-like receptor signaling pathway", but using just the 04622 or hsa04622 works as expected. ...
written 26 days ago by anamaria0
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Answer: A: pathview: object 'bods' not found
... As per [here][1], this is a common issue and usually can be solved by unloading and loading the package: ``` detach("package:pathfindR", unload=TRUE) detach("package:pathview", unload=TRUE) library(pathfindR) ``` [1]: https://github.com/egeulgen/pathfindR/issues/10 ...
written 4 weeks ago by anamaria0
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Issue with xml files downloaded with `pathview()`
... I am having issues with KEGG pathway xml files. In short, when I run `pathview()` files are being downloaded, but they are not in xml format and cannot be parsed so I get the following error: `Start tag expected, '<' not found` I tried updating XML and KEGGgraph packages, but the issue is still ...
pathview xml kegg written 4 weeks ago by anamaria0 • updated 29 days ago by Luo Weijun1.5k

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