Pathway Enrichment Analysis plots: easy R tutorial

[@joeyoviedo5202]

Hi, yet another great tutorial. I enjoy your tips and tricks like the saving of multiple plots at once. You also briefly covered ggarrange() and I think it would be cool if you someday did a brief tutorial on publication tips and tricks (specifically for figures and also maybe a project framework flowchart type figure) that you have used or wish you would've known about sooner. I really like the pathway map too and would be really interested to see more on that and how to get a more concise map. Thanks and I will keep an eye out for your new uploads!

[@biostatsquid]

Hi! Thanks so much for your comment, your feedback inspired me to create a 'ggplot2 tricks & tips' video (at least part 1!). You can have a look here: kzbin.info/www/bejne/iH7Nk4akacmngdk Hope you like it!!

[@marinaborochov7278]

Thank you so much! Every single video is so helpful!

[@苏秋羊]

Hello, teacher. Why not set ontology = "Reactome" in the new function? Thanks so much.

[@LeviRafal]

Thank you very much for your easy-to-follow tutorial! I think you forgot the put the code "enrichres

[@biostatsquid]

Hi! A big thanks for your comment and for pointing that out for me!! I just added the extra snippet to the webpage:)

[@LeviRafal]

@@biostatsquid You're very welcome and thank YOU too!

[@pegahhejazi8399]

Hello thank you for the tutorial I have GSEA results and have no idea how to calculate and add the generatio and bgratio. I was wondering if you can explain a bit more about this part

[@swethaanatraj]

Nice video! I could not understand what # Substitute names so they are annotated nicely in the heatmap later df$diffexpressed

[@swethaanatraj]

I have a small doubt, hope you can clarify. I began splitting my differentially expressed genes df as upregulated or downregulated into 2 new dfs using tibble and dpylr, and then I saw your video on creating sub-dfs .. but I am not able to follow that part fully. But I could create my bg gene with terms and get the cluterprofiler step running! I did this : loaded_data_GOBP

[@khyatipatni6117]

Hi, thanks for the this great video, I only have genes list and I just want to cluster kegg pathways into similar pathways, how can we do that ?

[@backgroundkiller]

Super cool video! Can you explain EnrichR in a different video?

[@biostatsquid]

Great suggestion!:) I have a few more videos coming up soon but will add it to the list;)

[@DreamersCatalyst]

Can you do a video for pathway enrichment analysis using pathfindR package in R