R help - Jun 2017 - Dendogram from RNAseq read count to show correlation between biological replicate using R

Dear all,

I need to make dendogram from read count in a csv file across 34 samples
including biological replicate.

Please share R code or package to do this.

Do I also need to normalized read count before using read data?

Thanks

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On Fri, Jun 9, 2017 at 5:22 AM, Yogesh Gupta <yogesh2cute at gmail.com>
wrote:
> Dear all,
>
> I need to make dendogram from read count in a csv file across 34 samples
> including biological replicate.
>
> Please share R code or package to do this.
>
> Do I also need to normalized read count before using read data?
>
> Thanks
>
>         [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.

Yogesh please try to search in google or stackoverfolow or for that matter
Biostars. These are pretty simple linear programming tools specially
needing just required package and function once you parse the matrix or in
your case .csv file. If you find particular problem when your code runs an
error we can help. Without trying anything no one will do anything for you.
Try framing your query and search in google in the above-mentioned websites
you will find your answers. All the queries you have asked have been
addressed in multiple websites and bioinformatics or SO blogs. Try to learn
and practice R about how to work with it and then understand a standard
workflow used in RNA-Seq, and follow some Bioconductor tools there. You
will find your answers. Thanks

----------------------------------------------------------

Vivek Das


On Fri, Jun 9, 2017 at 2:22 PM, Yogesh Gupta <yogesh2cute at gmail.com>
wrote:
> Dear all,
>
> I need to make dendogram from read count in a csv file across 34 samples
> including biological replicate.
>
> Please share R code or package to do this.
>
> Do I also need to normalized read count before using read data?
>
> Thanks
>
>         [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/
> posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
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