User: lenC_biotecLover

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Posts by lenC_biotecLover

<prev • 28 results • page 1 of 3 • next >
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Comment: C: Venn Diagrams with labels
... thank you, Indeed I need to automatize the process the most I can ...
written 17 days ago by lenC_biotecLover20
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Venn Diagrams with labels
... Hi everyone, I'have three vectors containing genes, in R I want to put in a Eulero Venn diagram these vectors showing the genes in common between them, something like [this][1]: I would like to insert gene names in common within the intersections. Any advice? Thank you [1]: https://www.nicepng. ...
eulerovenn genes R rna-seq graphics written 17 days ago by lenC_biotecLover20 • updated 17 days ago by nimojose0
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Normalizing data from GEO dataset
... Hi eveyone. I want to use a miRNA seq dataset, from GEO (GSE28884) as a validation dataset, to be used after a feature selection process tried on TCGA miRNA expression profiling dataset (I've to test a svm-classifier indeed). For the feature selection procedure I downloaded counts data and after ap ...
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Comment: C: How can I normalize RPKM data from TCGA (pan-cancer analysis)?
... Thank you! Ok, but these data is described as "normalized" I can't understand what type of normalization they did, do they just refer to RPKM? And if so, why do we have negative values? I red the series matrix and I could not find any other useful info. Thanks again. ...
written 21 days ago by lenC_biotecLover20
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Comment: C: Which kind of microRNAs expression are measured in TCGA?
... Hi! Did you solved this issue? Thank you! ...
written 22 days ago by lenC_biotecLover20
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Comment: C: How can I normalize RPKM data from TCGA (pan-cancer analysis)?
... Thank you. Now the problem is that I downloaded some data from GEO (Tumoral Breast vs Normal Breast samples), in particular this is the code: GSE68085, I suppose that data is already log2 normalized and some negative values are in it. I want to use this data as a validation dataset (I'm using an s ...
written 22 days ago by lenC_biotecLover20
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Comment: C: Problem with Affymetrix cdf file
... It worked, thank you again ...
written 29 days ago by lenC_biotecLover20
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Comment: C: How can I normalize RPKM data from TCGA (pan-cancer analysis)?
... @dare_devil, Ok I tried but log scaled RPKM are also negative in some cases and the `vst` function doesn't work on negative values. How can I handle with this? ...
written 4 weeks ago by lenC_biotecLover20
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Comment: C: Problem with Affymetrix cdf file
... ok, thank you! I'll try ...
written 4 weeks ago by lenC_biotecLover20
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Problem with Affymetrix cdf file
... I 'm trying to perform a DE analysis on CEL files. I've had to download the **miRNA-4_0-st-v1.cdf** file and to create a package using the `make.cdf.package` function; then I tried to install it in the shell but I encountered the following error, even if I load the AnnotationDbi package in R : ...
R affymetrix written 4 weeks ago by lenC_biotecLover20 • updated 4 weeks ago by Kevin Blighe69k

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Supporter 29 days ago, voted at least 25 times.

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