basepairmodels

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Hello - I'm trying to run basepairmodels on the provided CTCF chIP-seq data from ENCODE. I got to the model training step, when the job failed with: Traceback (most recent...

gregorydonahue

parameter tweaking for Dnase/ATAC-seq data

1

Dear developers, I wonder if there is documentation/example for training based on Dnase/ATAC-seq input? I would highly appreciate suggestions on parameter tweaking!! It seems ATAC/Dnase are supported model architectures from...

ChangxuFan

Bumps [tensorflow-gpu](https://github.com/tensorflow/tensorflow) from 1.14 to 2.12.0. Release notes Sourced from tensorflow-gpu's releases. TensorFlow 2.12.0 Release 2.12.0 TensorFlow Breaking Changes Build, Compilation and Packaging Removed redundant packages tensorflow-gpu and tf-nightly-gpu. These...

dependabot[bot]

Bumps [numpy](https://github.com/numpy/numpy) from 1.16.4 to 1.22.0. Release notes Sourced from numpy's releases. v1.22.0 NumPy 1.22.0 Release Notes NumPy 1.22.0 is a big release featuring the work of 153 contributors spread...

dependabot[bot]

Is there support for shap_scores.py that for models that don't contain a bias track? When setting up a model with no bias, there is only 1 sequence input, but the...

mlweilert

Thank you for developing this fantastic package and the very recent update. I have not tried it yet, but I guess the predict step will be much faster. I have...

nzhang89

Update modisco version

2

Use latest version of modisco and update the call to TfModiscoWorkflow

zahoorz

zahoorz

zahoorz

zahoorz