Review and fix errors and warnings from automated checks in Bioconductor

[davidpross]

Build report[^1]

• [x] ERROR: System files found that should not be Git tracked. InSituType.Rproj
• [x] NOTE: Consider adding these automatically suggested biocViews: Transcriptomics
• [x] WARNING: Remove set.seed usage (found 3 times)
• [x] ERROR: At least 80% of man pages documenting exported objects must have runnable examples.
• [x] ERROR: Maintainer must add package name to Watched Tags on the support site; Edit your Support Site User Profile to add Watched Tags.

[^1]: link only valid 21 days

[davidpross]

• Checking man page documentation...
  • ERROR: At least 80% of man pages documenting exported objects must have runnable examples. The following pages do not: choose_anchors_from_stats.Rd, chooseClusterNumber.Rd, colorCellTypes.Rd, Estep.Rd, fastCohorting.Rd, find_anchor_cells.Rd, flightpath_layout.Rd, flightpath_plot.Rd, geoSketch_get_plaid.Rd, geoSketch_sample_from_plaids.Rd, geoSketch.Rd, get_anchor_stats.Rd, getMeanClusterConfidence.Rd, insitutype.Rd, insitutypeML.Rd, ismax.Rd, lldist.Rd, lls.Rd, logliks2probs.Rd, Mstep.Rd, nbclust.Rd, numCores.Rd, prepDataForSketching.Rd, probs2logliks.Rd, update_logliks_with_cohort_freqs.Rd, updateProfilesFromAnchors.Rd, updateReferenceProfiles.Rd