User: DBScan

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DBScan20
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23 hours ago
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4 weeks, 1 day ago
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b****************@gmx.net

Posts by DBScan

<prev • 7 results • page 1 of 1 • next >
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Answer: A: GSVA on enrichment scores about R project
... The first error is because "gene" is a data.frame instead of a matrix (I had the same error same days ago too). The second error is because the GMT file has a wrong format I think. You can check the GMT format here: http://software.broadinstitute.org/cancer/software/gsea/wiki/index.php/Data_formats ...
written 8 days ago by DBScan20
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Comment: C: Calculating pathway activity from TCGA RPPA data
... Thanks, I also thought about this procedure. What could be a way to make use of measurements where they measured both (non)-phosphorylated proteins? Manually checking databases like KEGG to see what influence the phosphorylated protein has? ...
written 8 days ago by DBScan20
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Calculating pathway activity from TCGA RPPA data
... Is it possible to infer pathway activity from RPPA (reverse-phase protein array) data from for instance TCGA? I've read some papers where they say it is possible, but unfortunately they don't explain how. ...
pathway R tcga rppa written 8 days ago by DBScan20 • updated 8 days ago by Kevin Blighe63k
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Answer: A: Getting error while installing other packages in R after installing Rtools40 pac
... Isn't Rtools 40 only for R version 4? Maybe you have to upgrade R first to 4, and then install Rtools40. ...
written 17 days ago by DBScan20
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Comment: C: awk column number is a variable
... The output of echo "($colnr)" is ( 281) Why is it that way? ...
written 23 days ago by DBScan20 • updated 23 days ago by Pierre Lindenbaum129k
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awk column number is a variable
... I am trying to filter GTEx for liver tissue. I was able to extract the sample names from the "SamplesAtrributesDS.txt" file and find the corresponding column number in the "transcript_expected_count.gct" file for each sample. I then want to use awk to extract the counts from the column number, but I ...
awk rna-seq bash written 23 days ago by DBScan20 • updated 23 days ago by user_without_id140
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Converting RPKM into counts
... Is it possible to convert RPKM into counts? If I want to get the count of gene_i for sample_j, can I calculate (the coding length of gene_i * RPKM of geni_j and sample_j * sum of all RPKM of sample_j) / (10^9)? ...
rna-seq written 29 days ago by DBScan20 • updated 29 days ago by Shalu Jhanwar400

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