DGE_workshop_salmon_online
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hbctraining
Remove "We have available an [example html report](https://www.dropbox.com/s/xp7l0b46rvwmbya/workshop-example.html?dl=1) for perusal. " Need to create an issue to find the report.
pseudbulk DE lesson has code for a nice facet gene plot of expression differences between groups. Add in here
the schedule page needs to be updated with these
metacoder: https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005404
https://hbctraining.github.io/DGE_workshop_salmon_online/lessons/10_FA_over-representation_analysis.html When working with my own data set, when running the cnetplot code I get this warning: ``` Scale for size is already present. Adding another scale for size, which...
"I am self-learning bioinformatics using the awesome material prepared by your training program. For the topic: - "Differential Gene Expression Analysis (bulk RNA-seq Part II)"; - Part III (DESeq2); -...
the correlation coloring is the reverse of what the mind (my mind) expects. Should be redone here with the reverse color scheme. https://github.com/hbctraining/DGE_workshop_salmon_online/blob/master/lessons/03_DGE_QC_analysis.md
No error. Just does not produce any graph ``` > pathview(gene.data = foldchanges, + pathway.id = "hsa03008", + species = "hsa", + limit = list(gene = 2, # value gives...