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duplicate of your previous question: https://www.biostars.org/p/9592646/
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You could also try kernel PCA, which is a non-linear form of PCA, although this will be more time-consuming.
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I have unstranded RNA-seq data. Please share the tool with me, if you do not mind.
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Please post information about your tool as a `tools` category post. Don't wait/ask other users to ask you.
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Sorry for the delay in my answer, I got sidetracked.
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We just developed a R package to tackle this problem.
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