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Imported tSNE coordintes not being read! #14

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AAA-3 opened this issue Aug 20, 2021 · 0 comments
Open

Imported tSNE coordintes not being read! #14

AAA-3 opened this issue Aug 20, 2021 · 0 comments

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@AAA-3
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AAA-3 commented Aug 20, 2021

I was wondering if anyone could help me here: I managed t oloadmy tsne coordinates but ran into an issue when I open the loom file and try to set the obsm_mapping parametre:

adata = scv.read_loom("/home/ali/Dokumente/RPractise/Velocity/PythonCodes/adata.loom", obs_names="CellID", var_names="Gene", obsm_mapping="X_tsne")
image

Without setting the obsm_mapping parametre, the file loads normally and one can even see the tsne coordinates. Seeing as the information is available in the loom file, I assume that it is in an incorrect format...would it have something to do with it being an array? I notice that there is no ["tsne_1", "tsne_2"] headers, as listed in the scvelo.read_loom API page
image

Anyone know how to resolve this?

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