dds_lrtis originally created in Multiple test corrections with:
dds_lrt <- DESeq(dds, test="LRT", reduced = ~ 1)
Is referred to later in the LRT lesson
rld_mat is originally created in Visualizations self learning:
rld <- rlog(dds, blind=T)
rld_mat <- assay(rld)
Is referred to later in the in LRT lesson
We should either add a note for how to recreate the objects, or instruct students to save (and load) their environment for each lesson. I think it is easier to just add a note for how to recreate the objects since environments can get confusing and might be conceptually new for students (we don't introduce the concept)
mistrm82
commented
3 months ago
dds_lrtis originally created in Multiple test corrections with:dds_lrt <- DESeq(dds, test="LRT", reduced = ~ 1)Is referred to later in the LRT lessonrld_matis originally created in Visualizations self learning:Is referred to later in the in LRT lesson
We should either add a note for how to recreate the objects, or instruct students to save (and load) their environment for each lesson. I think it is easier to just add a note for how to recreate the objects since environments can get confusing and might be conceptually new for students (we don't introduce the concept)