create a vignette with an example analysis script

GoekeLab / proActiv

Estimation of Promoter Activity from RNA-Seq data

https://goekelab.github.io/proActiv/

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create a vignette with an example analysis script #11

Closed jleechung closed 4 years ago

jleechung commented 4 years ago

include workflow for building a promoter annotation object, running proActiv, identifying alternate promoter usage
include simple plots of promoter information (promoter categories, positions, tsne)

jleechung commented 4 years ago

vignette implemented with release 0.99.0, documenting a complete step-by-step workflow in identifying active and alternative promoter usage. includes sections on:

Running proActiv
Creating promoter annotations
Identifying alternative promoter usage (with DEXSeq)
Visualizations
- Promoter activity across conditions (with Gviz)
- Promoter class proportions
- Promoter class by position
- t-SNE plot