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Can't see the gene names #11

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doctorasgr opened this issue Jul 23, 2020 · 2 comments
Open

Can't see the gene names #11

doctorasgr opened this issue Jul 23, 2020 · 2 comments

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@doctorasgr
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doctorasgr commented Jul 23, 2020 •
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Hi there,
Thank you for this useful tool. I was trying to get my head around this last night. Unfortunately, although I upload the right count matrix, metadata and annotation file when I try to magnify the PCA, I can't see any name of the genes on the dots.
Thanks in advance for your response.
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Thanos
@doctorasgr doctorasgr changed the title Can't see the gene name Can't see the gene names Jul 23, 2020
@federicomarini
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Hi Thanos,
I never encountered such a case.

Still, from the screenshots you posted:

  • looks like you are using transcript-level data - at least in the annotation
  • but your count matrix is on the gene level
    Basically there is an identifiers mismatch - pcaExplorer can't find the corresponding ENSG... in a list of ENST...

Can you try to upload a corresponding annotation object?

Federico

@federicomarini
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Any update on this @doctorasgr?

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@federicomarini @doctorasgr