search

hartleys / JunctionSeq

The JunctionSeq R package is a powerful tool for testing and visualizing differential usage of exons and splice junctions in next-generation, high-throughput RNA-Seq experiments.
28 stars 15 forks source link

Multiple conditions comparsion #40

Open LOYON2019 opened 5 years ago

LOYON2019 commented 5 years ago

Hello, I have 6 samples with 3 replicates. like A, B....F. However, I am not sure how to do multiple analysis in one run, I need compare A:B, C:D, E:F, A:C, A:E, B:D, B:F. Could anyone has a suggestion? thank you.

hartleys commented 4 years ago

Define sample and define replicate. Are the replicates biological replicates or technical? ie did you take the same biological sample and run it on three sequencing runs, or did you take 3 biological samples from the same condition (or maybe from the same tumor sample) and do library prep and sequencing runs on that?