Yanshuo Chen
Yanshuo Chen
Thanks for @mariaprimo 's answer, but it's been three years and this issue still exists 👀
Hi Junjie, Sorry for the late reply. For sc_ref argument, it is the single cell data from whatever 10X or other sequencing technology. For the datatype argument, please note no...
> should bulk TPM or FPKM data be log2 transformed? The raw TPM or FPKM data is better than log-transformed data
Hi Alexandre: Thanks for using TAPE! So, I design it to show a concept of how the MMS or SS transform the data distribution. For you convenicne, I suggest you...
Hi Logan, Thanks for your commit, but I am considering removing these function, calculating the TPM or FPKM seems useless? Yanshuo
Hi doulijun777: Thanks for trying TAPE. Actually, I am not very sure about the normalization problem right now. Probably I should not commentated it out. For the bulk data, whatever...
Hi, Sorry for the inconvenience. I realized there is some issue with the package but did not put effort on maintenance. Probably the first issue is the usage of "adaptive"...
Hi, You're right, I did not provide the access because I think it is useless. If we want the Signature matrix, why dont we just group the single-cell dataframe by...
It's a good point, I think this situation would happen if the model is under-fitting. Ideally, if the model is trained well on the simulated datasets, the learned GEP should...
Hi, I think you have understood the second way, the code you tested is right. The problem is **MemoryError**: Unable to allocate 20.6 MiB for an array with shape (231,...