Question: Using a chi-squared test for independence for DEG analysis
0
gravatar for SylviaR
7 months ago by
SylviaR0
SylviaR0 wrote:

Hi,

I have an expression matrix of data from three different conditions (about 75 samples in total, 25 for each condition). To identify differentially expressed genes, is it possible to do a chi-squared test for independence, comparing the groups? So I compare group A to B, B to C and C to A.

Is this advisable, if so, why not and what should I do in stead?

Thank you so much!

ADD COMMENTlink modified 7 months ago • written 7 months ago by SylviaR0

Thank you so much! :):)

ADD REPLYlink written 7 months ago by SylviaR0
3
gravatar for ATpoint
7 months ago by
ATpoint30k
Germany
ATpoint30k wrote:

Use any of the established tools such as DESeq2, edgeRor limma. Please read the respective papers to see why these specialized methods exist and how they compare to naive approaches.

ADD COMMENTlink written 7 months ago by ATpoint30k
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