Got few dumb questions, might already been asked before.
1, Are the sum of RPKM for all transcripts in a genome supposed to be identical across tissues or samples ?
2, For detecting differential expression, which method works better: parameter method using negative binomial or other distribution, or the nonparameter method like fisher test? I personally prefer fisher, but I am not sure.
3, It seems to me the parameter method needs replicates to do the differential expression test. If I have only one RPKM value for each transcript, it means I have no choice but the fisher method, correct?
Thanks,
Rainbird
1, Are the sum of RPKM for all transcripts in a genome supposed to be identical across tissues or samples ?
2, For detecting differential expression, which method works better: parameter method using negative binomial or other distribution, or the nonparameter method like fisher test? I personally prefer fisher, but I am not sure.
3, It seems to me the parameter method needs replicates to do the differential expression test. If I have only one RPKM value for each transcript, it means I have no choice but the fisher method, correct?
Thanks,
Rainbird
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