Hi, I'm almost entirely new to coding and currently taking a course on Bioconductor in edX. I'm trying to download a package which is required to complete an assessment however this is what I get:

BiocManager::install("tissueGeneExpression") Bioconductor version 3.11 (BiocManager 1.30.10), R 4.0.2 (2020-06-22) Installing package(s) 'tissueGeneExpression' package ‘tissueGeneExpression’ is not available (for R version 4.0.2)

I tried to install an older version of R, however it didn't help. I tried to find a way to overcome this problem online, but I can't really figure how to do it. Any help would be very appreciated :)

Best regards, Emil

If this is the tissuesGeneExpression that's part of the genomicsclass GitHub (note that it's tissuesGeneExpression, with an s), then you have to do it a slightly different way.

> library(BiocManager)
Bioconductor version 3.11 (BiocManager 1.30.10), ?BiocManager::install for help
> install("genomicsclass/tissuesGeneExpression")
Bioconductor version 3.11 (BiocManager 1.30.10), R 4.0.0 (2020-04-24)
Installing github package(s) 'genomicsclass/tissuesGeneExpression'
Downloading GitHub repo genomicsclass/tissuesGeneExpression@HEAD
v  checking for file 'C:\Users\Public\Documents\Wondershare\CreatorTemp\RtmpATmFpP\remotes498833df72f\genomicsclass-tissuesGeneExpression-a43cf4b/DESCRIPTION' (1s)
-  preparing 'tissuesGeneExpression':
v  checking DESCRIPTION meta-information
-  checking for LF line-endings in source and make files and shell scripts
-  checking for empty or unneeded directories
-  looking to see if a 'data/datalist' file should be added
-  creating default NAMESPACE file
-  building 'tissuesGeneExpression_1.0.tar.gz'

* installing *source* package 'tissuesGeneExpression' ...
** using staged installation
** data
** help
No man pages found in package  'tissuesGeneExpression' 
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
*** arch - i386
*** arch - x64
** testing if installed package can be loaded from final location
*** arch - i386
*** arch - x64
** testing if installed package keeps a record of temporary installation path
* DONE (tissuesGeneExpression)
> library(tissuesGeneExpression)
> data(package="tissuesGeneExpression")
Data sets in package 'tissuesGeneExpression':

e (tissuesGeneExpression)

tab (tissuesGeneExpression)

tissue (tissuesGeneExpression)

Thanks for help :) Problem solved! :)

Thanks for help :) Problem solved! :)

The easiest way to do this is to download the tissueGeneExpression library from https://github.com/genomicsclass/tissuesGeneExpression/tree/master/data as a .rda file.

Open with Rstudio

Load it into the global environment

and you are done

now you can check if it is good or not, just fire the following commands:

library(tissuesGeneExpression) data(tissuesGeneExpression) head(e[,1:5]) table(tissue)

and if the results are like the following, you are good to go ahead:

library(tissuesGeneExpression)

data(tissuesGeneExpression)

head(e[,1:5])

      GSM11805.CEL.gz GSM11814.CEL.gz GSM11823.CEL.gz GSM11830.CEL.gz GSM12067.CEL.gz

1007_s_at 10.191267 10.509167 10.272027 10.252952 10.157605 1053_at 6.040463 6.696075 6.144663 6.575153 6.606701 117_at 7.447409 7.775354 7.696235 8.478135 8.116336 121_at 12.025042 12.007817 11.633279 11.075286 10.832528 1255_g_at 5.269269 5.180389 5.301714 5.372235 5.334905 1294_at 8.535176 8.587241 8.277414 8.603650 8.303227

table(tissue) tissue cerebellum colon endometrium hippocampus kidney liver placenta 38 34 15 31 39 26 6