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OSU-BMBL / scDEAL

Deep Transfer Learning of Drug Sensitivity by Integrating Bulk and Single-cell RNA-seq data
Apache License 2.0
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How to set parameters when I use my own data ? #8

Open Hira8023 opened 1 year ago

Hira8023 commented 1 year ago

Hi, When I use my own single cell data, is there any basis for parameter settings? Including: bottleneck, encoder dimensions, predictor dimensions, encoder model, dropout, learning rate, and sampling.

juychen commented 1 year ago

Hi, we have only tested the pre-built data at the moment. For your own data you may refer to the list of params on the github

libmelo commented 1 year ago

Hi, we have only tested the pre-built data at the moment. For your own data you may refer to the list of params on the github

Hi, I have some suggestions. The scripts may need to be explained more clearly. For example, the scripts should clarify their roles, necessary inputs and outputs (specify which params for inputs, outputs and different modes). Besides, the formats of inputs and outputs may also need to be explained in details (gene symbl or id, normalization etc.).

SiyuanHuang1 commented 1 year ago

I completely agree with the above point of view. I spent half a day configuring the environment and reading the documentation, but I still don’t understand how to use it. In addition, after reading other issues, it seems that no one has been able to successfully apply this software to their own data. I hope the author can improve it well. Thank you in advance.