Stastical test for difference between TPMs for two transcript isoforms of a gene

Question

[jparker4]

Hi, I'm having some trouble knowing how best to test for statistical differences within my data. For each sample I mapped using salmon, I have TPM values for two different transcript isoforms of a particular gene and I want to compare the set of TPM values for one isoform to the set of values for the other to see if the difference is significant. However, I don't know how best to do this. Any help would be much appreciated, thanks.

[ivivek_ngs]

sorry the question is not very clear. A gene will encounter different transcripts and the read outs from salmon are the transcripts or genes that are expressed in your system. Now are you interested in performing in alternative splicing detection. From your query that is what I am able to figure out. Then you would like to check the links below

link1

link2