gene naming #10050
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I am mapping my single cell onto a reference atlas but the gene name annotation is different in my data compared to the gene annotation in the reference dataset. how can I go round this for instance my dataset has a gene named like this "gene:PF3D7-1312500" and the reference has gene named like this"PF3D7-0100200.1". how can I change them to be similar to compare across datasets |
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Replies: 2 comments 2 replies
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Do all of the genes have same prefix “gene:”? |
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yes |
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Hi @Emmage-jay, Ok then it is simple matter of extracting row names from matrix prior to creation of Seurat Object or from Seurat Object, then using If that doesn't work please let me know. Best, |
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It works. Thank you, Sam |
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Hi @Emmage-jay,
Ok then it is simple matter of extracting row names from matrix prior to creation of Seurat Object or from Seurat Object, then using
gsubto replace the prefix, then replacing the rownames.If that doesn't work please let me know.
Best,
Sam