Tian Tian

Does DeepLIFT support to use deep residual? I have a model with deep residual, and want to use DeepLIFT to interpret it too. Thanks!

@AvantiShri Yes, I am using Keras.

It seems this issue appears in the new version. There is no problem for Stringtie 1.3.x.

@gpertea When I use new version 2.0, the prepDE.py print the error message: Traceback (most recent call last): File "prepDE.py", line 255, in geneDict.setdefault(geneIDs[i],{}) #gene_id KeyError: 'ENST00000647043.1' Then I transfer...

Yes. The error happens on the second sample. How could I share the bam file with you? It is several Gbs. Thanks. > On Oct 16, 2019, at 8:07 AM,...

> What is the difference between scDeepCluster.py,scDeepCluster_latent.py and scDeepCluster_estimate_k.py? "scDeepCluster.py" is the code of scDeepCluster model. "scDeepCluster_latent.py" is the code used to extract latent embedding after the model training. "scDeepCluster_estimate_k.py"...

Sorry I can't see your attachment, could you send it again? Thanks.

It seems I didn’t receive your attachment. Could you send it to another email box: ***@***.******@***.***>. Thanks. Best, Tian From: GGyynnn ***@***.***> Date: Tuesday, March 26, 2024 at 9:50 AM...

Yes, there is difference. The main difference is I didn't add noise to the clustering layer, which will make the model difficult to converge. Why don't you use the PyTorch...

Could you let me know the version of PyTorch that you are using?