Can't see the gene names

federicomarini / pcaExplorer

pcaExplorer - Interactive exploration of Principal Components of Samples and Genes in RNA-seq data

https://federicomarini.github.io/pcaExplorer/

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Can't see the gene names #11

Open doctorasgr opened 4 years ago

doctorasgr commented 4 years ago

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.

Thanos

federicomarini commented 4 years ago

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 commented 3 years ago

Any update on this @doctorasgr?