This function takes a Molecule Experiment (ME) object as input and enriches it with boundary data from a variety of assays. The currently supported assays are:
Sub-sector polygons
Sub-concentric polygons
Super-sector polygons
Super-concentric polygons
The function internally processes each assay, extracts respective boundary information, and updates the original ME object with this new data.
Value
An enriched Molecule Experiment (ME) object that includes boundary information for the supported assays.
Examples
data(example_me)
me <- loadBoundaries(me)
me
#> MoleculeExperiment class
#>
#> molecules slot (1): detected
#> - detected:
#> samples (2): sample1 sample2
#> -- sample1:
#> ---- features (137): 2010300C02Rik Acsbg1 ... Zfp536 Zfpm2
#> ---- molecules (962)
#> ---- location range: [4900,4919.98] x [6400.02,6420]
#> -- sample2:
#> ---- features (143): 2010300C02Rik Acsbg1 ... Zfp536 Zfpm2
#> ---- molecules (777)
#> ---- location range: [4900.01,4919.98] x [6400.16,6419.97]
#>
#>
#> boundaries slot (5): cell subsector subconcentric supersector
#> superconcentric
#> - cell:
#> samples (2): sample1 sample2
#> -- sample1:
#> ---- segments (5): 67500 67512 67515 67521 67527
#> -- sample2:
#> ---- segments (9): 65043 65044 ... 65070 65071
#> - subsector:
#> samples (2): sample1 sample2
#> -- sample1:
#> ---- segments (60): 67500_01 67500_02 ... 67527_11 67527_12
#> -- sample2:
#> ---- segments (108): 65043_01 65043_02 ... 65071_11 65071_12
#> - subconcentric:
#> samples (2): sample1 sample2
#> -- sample1:
#> ---- segments (30): 67500_01 67500_02 ... 67527_05 67527_06
#> -- sample2:
#> ---- segments (54): 65043_01 65043_02 ... 65071_05 65071_06
#> - supersector:
#> samples (2): sample1 sample2
#> -- sample1:
#> ---- segments (55): 67500_01 67500_02 ... 67527_10 67527_11
#> -- sample2:
#> ---- segments (99): 65043_01 65043_02 ... 65071_10 65071_11
#> - superconcentric:
#> samples (2): sample1 sample2
#> -- sample1:
#> ---- segments (35): 67500_01 67500_02 ... 67527_06 67527_07
#> -- sample2:
#> ---- segments (63): 65043_01 65043_02 ... 65071_06 65071_07