How to use genewise using pubmed.mineR ?
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2.6 years ago

The example file is Genewise(x, "TLR4"). See the below mentioned link. https://rdrr.io/cran/pubmed.mineR/man/Genewise.html and in R studio, I am running Genewise(Abstracts, "TLR4"), getabs(Abstracts, "acinetobacter") ,Give_Sentences_PMC(PMC4039032, "atherosclerosis") and help(pubmed.mineR). But nothing work. Does anyone use Pubmed.mineR. I am doing something wrong or is there any problem with pubmed.mineR. Please let me know.

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Have you created an object of Abstracts class using the readabs function. Incase not you will need to create one with the following steps 1. Go to pubmed, search for your term of interest and then export the abstracts into a text file using the Send To functionality. 2. Now read in the abstracts text file to create a objects of Abstracts class as follows

library(pubmed.mineR)
myabs=readabs("pubmed_result.txt")
Genewise(myabs, "TLR4")

In case you have already created the Abstracts object can you add the code you used to create it.

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Hi @sharmatina, is there a tutorial on how to use this package because there isn't proper documentation on the usage of this package?

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