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Hi, Sarah. You should really consider finding and talking to a mentor for your research before posting to Biostars. Several questions you have been asking seem pretty basic and specific and are asked without context. It makes it difficult to give you good answers and I sense that you would benefit from talking with someone who knows what you are trying to do before you post.
You're right Sean, but for sure if I had another way to do my thesis I would not disturb people here...
Even better that you are working on a thesis. Your thesis committee and advisor are ideal candidates to meet with to discuss your problems and progress.
Dear Sean, my supervisor doesn't care my problems at all, this is a reality.