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fpbarthel / GLASS

GLASS consortium
MIT License
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Can you share the input files for reproduce the figures? #156

Closed zhaoliang0302 closed 2 years ago

zhaoliang0302 commented 2 years ago

Hi, thank you for sharing the codes of the figure visualization. These plots are so beautiful. I want to run these codes to understand them and try to apply them to my own research. However, I noticed that the input file in each R code was not provided, such as the con data frame in the F1-F3-GLASS-heatmap.R. Can you kindly share the input files in the repository? Thanks

fpbarthel commented 2 years ago

Hi @zhaoliang0302, thanks for the compliment! Unfortunately, the input data was pulled from a database and I no longer have direct access to this.

con is not a data frame but a pointer to a database connection. The script you are referring to uses various datasets for a number of distinct levels of data. The variables in the R script are called xxxxdata The database connection con is used to query the database using an SQL scripts contained in this Github.

The essential data tables are largely contained on the Synapse page: https://www.synapse.org/#!Synapse:syn17038081

You can try taking your question to the discussion board: https://www.synapse.org/#!Synapse:syn17038081/discussion/default

You can also try generating the data frames your self using the SQL codes, but this is not going to be very straightforward.

zhaoliang0302 commented 2 years ago

Thank you for you reply!