Journal Club

Genomic signals / data types

Radiation-related genomic profile of papillary thyroid carcinoma after the Chernobyl accident
Lindsay M. Morton, ... Stephen J. Chanock
Science, 372 (6543), eabg2538. • DOI: 10.1126/science.abg2538

Hackathon - 10:30-11:30

continuing PART IIa

The Fellowship of TensorFlow: Part IIb

Data from part I is shared here: https://drive.google.com/drive/folders/1vJMhusjvkmD6CsLuPbQy7kELs5VmBve7

Praful's computation of part II (in browser): https://observablehq.com/@prafulb/tf-tfjs-for-c4b

model.json here: https://cloud4bio.github.io/data/model.json

save and load models to TF.js :

https://www.tensorflow.org/js/guide/save_load

The model:

https://cloud4bio.github.io/data/model.json

and the weights:

https://cloud4bio.github.io/data/group1-shard1of1.bin

Recording:

https://www.youtube.com/watch?v=X486Ka8J21U

The Fellowship of TensorFlow: Part III

R TensorFlow: https://tensorflow.rstudio.com/

Blog on R AI/TensorFlow/Torch: https://blogs.rstudio.com/ai/

Spin R VMs on Colab: https://colab.research.google.com/notebook#create=true&language=r

Drive: https://googledrive.tidyverse.org/

GCS: https://cran.r-project.org/web/packages/googleCloudStorageR/vignettes/googleCloudStorageR.html

Sheets: https://github.com/jennybc/googlesheets

BigQuery: https://bigrquery.r-dbi.org/

SavedModel: https://rdrr.io/github/rstudio/keras/man/save_model_tf.html

ONNX: https://onnx.ai/onnx-r/

Plumber/Shiny/TF Serving/RStudio Connect: https://tensorflow.rstudio.com/deploy/

One ring to rule them all?

Data: HDF5, Zarr, TFRecords?

Models: ONNX, SavedModel, Apache TVM?