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MiraldiLab / maxATAC

Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks
Apache License 2.0
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Write a detailed prediction walkthrough #71

Closed tacazares closed 2 years ago

tacazares commented 2 years ago

We need to have a walkthrough that guides the user through every step of prediction. The walkthrough should contain information on how to process the ATAC-seq data from fastq file to inspecting prediction outputs. The current list of functions and arguments can be found here.

tacazares commented 2 years ago

Here is a rough draft of a prediction walkthrough available through the maxatac_docs repo

emiraldi commented 2 years ago

Looks great!

Could you add:

You will need to make sure that you have downloaded and installed the reference .2bit, chrom.sizes, and blacklist files. Available [here](link to wherever we have these located for people).

That will lower barrier to run!

On Wed, Dec 8, 2021 at 10:34 PM Tareian Cazares @.***> wrote:

Here is a rough draft of a prediction walkthrough available through the maxatac_docs repo https://github.com/MiraldiLab/maxATAC_docs/blob/main/walkthrough/prediction_walkthrough.md

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