Question: RNA-seq wig to matrix
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gravatar for zhichengji
5 weeks ago by
zhichengji0
zhichengji0 wrote:

I encountered some publicly available RNA-seq data from IHEC that are in .wig format, such as: https://epigenomesportal.ca/tracks/Blueprint/hg38/59065.Blueprint.ERS1020837.RNA-Seq.signal_forward.bigWig https://epigenomesportal.ca/tracks/Blueprint/hg38/59066.Blueprint.ERS1020837.RNA-Seq.signal_forward.bigWig https://epigenomesportal.ca/tracks/Blueprint/hg38/59067.Blueprint.ERS1020837.RNA-Seq.signal_reverse.bigWig https://epigenomesportal.ca/tracks/Blueprint/hg38/59068.Blueprint.ERS1020837.RNA-Seq.signal_reverse.bigWig

It seems that these four files are for the same sample. I wonder whether there is a way to convert these bw files into a gene expression matrix where I can get FPKM values for each gene?

rna-seq ihec • 106 views
ADD COMMENTlink written 5 weeks ago by zhichengji0
1

C: Count matrix from bigwig files - Application

I would see if you find a count matrix or matrix of normalized counts at this website somewhere. This is way safer than messing around with wig files.

ADD REPLYlink modified 5 weeks ago • written 5 weeks ago by ATpoint36k
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