Hi guys,
You know, GTEx level 3 data is rpkm value, and TCGA data is RSEM and part have rpkm.
Now I want compare TCGA data with GTEx data, so I use TCGA rpkm vs GTEx rpkm, unfortunately I get anout 15,000 up regulate genes. When I check the two data, I find TCGA rpkm value is bigger than GTEx value.
Questions is :
1.Both TCGA rpkm and GTE rpkm are rpkm value but Why are they different?
2.Some subtypes in TCGA only have RSEM value, if I want to compare these subtypes with GTEx data, are there some methods to solve this problems?
You know, GTEx level 3 data is rpkm value, and TCGA data is RSEM and part have rpkm.
Now I want compare TCGA data with GTEx data, so I use TCGA rpkm vs GTEx rpkm, unfortunately I get anout 15,000 up regulate genes. When I check the two data, I find TCGA rpkm value is bigger than GTEx value.
Questions is :
1.Both TCGA rpkm and GTE rpkm are rpkm value but Why are they different?
2.Some subtypes in TCGA only have RSEM value, if I want to compare these subtypes with GTEx data, are there some methods to solve this problems?
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