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I am trying to use custom signatures. According to the README:
> xCell loads the xCell.data object wich is a list with the spill over and calibration paramters, the signatures and the list of genes…
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I have a TSV file training_abstracts.tsv when I use the function:
‘def test1():
with open('F:\\small paper\\ner\\data_file\\training_abstracts.tsv', 'r', encoding='utf-8') as f1:
line =…
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Hi All,
I am using RASQUAL on RNA-Seq data. Its been doing an amazing job so far.
I have couple of questions:
I saw in a paper that they split the genes in to "Genes with fSNPs" i.e likely t…
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http://doi.org/10.1371/journal.pone.0066341
Could be a nice way to complement the papers we have on autoencoders for gene expression (e.g., #6), showing how autoencoders can be used with clinical dat…
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Hi,
While running mutational signatures, i have encountered the following error. I am not able to debug it. Please help me. I am a not tech guy, trying to understand my .maf file.
I am using Homo_s…
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Hi. First of all, thanks for developing such a useful program! I'm trying to run the dereplicate step but the checkM step is failing:
$ dRep dereplicate outdR/ -g Final/*.fasta
*******************…
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Hi
there seems to be a bug with Firefox using the signatures tool with Xena. I can't copy and paste stored signatures- I have to re write them with new spacing. However it works fine with chrome; yo…
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This is unhelpful because there is no feedback to help you figure out why there was no data. For instance, did you type the gene name incorrectly? Or did you only misspell your gene name and it actual…
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Hello,
pfscan is one part of pftools. There is something incorrect about this description of this tool set. The issue is that fortran has nothing to do with make/install not working; that is from…
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Hi Donovan,
Currently checkM reports "contamination" as a percentage. However, I think intuitively people think a contamination percentage should reflect **(1)** "the percentage of contigs that are…