RNAseq mapping with Salmon for differential expression

How do you process raw read data for the purpose of differential expression? In this video I map raw RNAseq reads using Salmon and follow up with differential expression analysis in R with Deseq2. notebook: https://github.com/mousepixels/sanbom... references: https://salmon.readthedocs.io/en/late... index preparation: https://combine-lab.github.io/alevin-...