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xushiabbvie / TDtool

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missing SL calculations on figshare #1

Closed ThomasGro closed 2 months ago

ThomasGro commented 2 months ago

Thank you for providing the code and also results of your analyses. I found that your SL calculations on figshare https://figshare.com/projects/TCGADEPMAP_Mapping_Translational_Dependencies_and_Synthetic_Lethalities_within_The_Cancer_Genome_Atlas/130193 is empty (looping back to the publication folder). Could you please check.

xushiabbvie commented 2 months ago

Hi, thank you for your interest in our research. I just check the link and the supplemental data are there. Please double check.

ThomasGro commented 2 months ago

Thank you for your reply.

However, I cannot see the R object file that is described in the paper: “…Lasso regression analysis of gene essentiality profiles and 25,026 LOF events detected in TCGADEPMAP yielded 633,232 synthetic lethal candidates (FDR < 0.01) (all candidates added as an R object to a figshare repository), ...”

Maybe it does not show up in figshare?

This folder is empty: "project: TCGADEPMAP – Mapping Translational Dependencies and Synthetic Lethalities within The Cancer Genome Atlas" image

xushiabbvie commented 2 months ago

I am not sure about the issue since I am able to see the data without login. Please check the SL data through this link. Hope this helps. Thanks. https://figshare.com/s/a76d338a425273b42c8b

ThomasGro commented 2 months ago

Yes, this link works for me. I can see the .rds files.