Hello,
I am a beginner in analyzing data from an RNA seq experiment. I was not the one performing the bioinformatics analysis (I am more of a bench scientist). So, I have an excel file in my hands. I am a bit confused though with how to retrieve my DE genes.
I have read what p and q values represent. I have understood that setting an FDR value threshold is a 'safe' choice in order to identify whether the significant differences recorded are truly significant.
I am a bit confused though with choosing the FDR threshold. If I understand correctly the level of 0.05 does not apply to all experiments.
Could you please refer me to some further reading, or perhaps provide me with some tips, so that I proceed correctly with my analysis?
I apologize if this is a very basic question. I appreciate your help.
Regards
Vassen
I am a beginner in analyzing data from an RNA seq experiment. I was not the one performing the bioinformatics analysis (I am more of a bench scientist). So, I have an excel file in my hands. I am a bit confused though with how to retrieve my DE genes.
I have read what p and q values represent. I have understood that setting an FDR value threshold is a 'safe' choice in order to identify whether the significant differences recorded are truly significant.
I am a bit confused though with choosing the FDR threshold. If I understand correctly the level of 0.05 does not apply to all experiments.
Could you please refer me to some further reading, or perhaps provide me with some tips, so that I proceed correctly with my analysis?
I apologize if this is a very basic question. I appreciate your help.
Regards
Vassen
Comment