SurvPath

SurvPath copied to clipboard

Each fold is trained for a fixed number of epochs. There is no early stopping based on validation c-index (results wouldn't be fair).

5

Sorry for the late reply. Each fold is trained for a fixed number of epochs. There is no early stopping based on validation c-index (results wouldn't be fair). _Originally posted...

liupei101

5-Fold CV split Implementation

1

Hi, As mentioned in the paper > Each split was stratified according to the sample site to mitigate potential batch artifacts In the code provided, I'm unable to understand how...

adiv5

Reactome Data Source

1

Hi, In the documentation, it was mentioned that > "To get the Reactome pathway compositions, refer to [PARADIGM](http://paradigm.five3genomics.com/)" However the Link is broken. Can you update the link along with...

adiv5

Cannot reproduce the same results

2

Hi, Thank you very much for publishing this interesting work. I have reproduced the results on TCGA COADREAD cohort, and my results do not replicate your reported values. I downloaded...

Hasindri

How to Draw a Heatmap for Survival Prediction?

2

In CLAM, the heatmap of pathological images is drawn based on the label dictionary, such as LUAD and LSCC. How can this setting be modified to draw heatmaps in a...

sjjadsa

code for predicting risk scores

2

could u please release the code for predicting risk scores,especially using the model from each and predict the correspoding validation set.thanks > We do not provide the code for drawing...

sjjadsa

Different forward outputs in different model

1

Thank you for sharing this outstanding work! I notice in your code there are different outputs in different models (https://github.com/mahmoodlab/SurvPath/tree/3f73ddd6705ec67d643020c5bb04fb13f9f382cc/models): 1. some are risks (e.g., in files of model_SurvPath.py and...

wuys13

How the KM curve is drawn？

4

I didn't quite understand, is this KM curve drawn with validation set data or training set? Is there any specific code for this, as the article doesn't explain this in...

hljWmh

Hi, thanks for an amazing work. I am trying to reproduce the results reported in the paper and I am having this problem. So in the paper, it is said...

lexuanhoang04

Thank you for your contribution. I have a question regarding the discretize function. It appears that the quantilization step within the discretization process is applied to the entire dataset, including...

GYDDHPY