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williamritchie / IRFinder

Detecting intron retention from RNA-Seq experiments
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Uneven number of replicates #119

Closed bounlu closed 4 years ago

bounlu commented 4 years ago

Does IRFinder accept uneven number of replicates? e.g. 2 KD vs 1 Scr sample?

dg520 commented 4 years ago

Hi @bounlu ,

If one condition contained only one sample while the other condition contained multiple samples, IRFinder does not support such comparison by default. That said, you can still do the comparison manually, by merging the condition with multiple samples in to one sample and then follow this approach

If you had uneven numbers where one condition contained >=3 sample while the other condition contained >=2 samples, you can use this approach

Best, Dadi