sctour
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LiQian-XC
A deep learning architecture for robust inference and accurate prediction of cellular dynamics
Hello - After installing sctour via pip, I received an error about needing scikit-misc. This is easy enough to install, but should this be added to setup.py?
Hi, Thanks for developing scTour which provides another possible solution to RNA velocity problem. I want to ask that, what would happen if the stem cells are on the middle...
When coming to the train step, kernel will be dead. I ran on my mac. nepoch=10
Hi, Qian, I am using adata as input of the h5ad file converted from Seurat. Adding data from RNA as X, adding counts from RNA as raw, transferring meta.data to...
The first and second step can be run,but when I run follow mode: **tnode = sct.train.Trainer(atest2)** such an error can occur: ValueError Traceback (most recent call last) Cell In[145], line...
hello!How can you make such a beautiful picture as Fig6e！！Can you provide a code！！thanks! 
ValueError: Invalid expression matrix in .X. nb mode expects raw UMI counts in .X of the AnnData."
hello i have the same issue,when run tnode = sct.train.Trainer(adata)tnode = sct.train.Trainer(adata) its error like this "ValueError Traceback (most recent call last) Cell In[22], line 1 ----> 1 tnode =...
Hi, devs When I tried running sctour with demo data[https://sctour.readthedocs.io/en/latest/notebook/scTour_inference_PostInference_adjustment.html], everything was fine, but when I trained it, an error occurred. What could be the reason? thinks `tnode.train()` > RuntimeError...
Mistake happen when I run sc.pp.highly_variable_genes(adata, flavor='seurat_v3', n_top_genes=1000, subset=True) Mistake as cannot specify integer `bins` when input data contains infinity What's wrong? Thanks!
Hello, I integrated 3 different scRNA-seq datasets using Harmony after individual SCT normalization, and wanted to use scTour on the resulting integrated dataset (~40K cells). I used the raw UMI...
