This function takes a MoleculeExperiment (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.
Arguments
- me
A MoleculeExperiment (ME) object
- ...
arguments passed to
GenerateFeatureData
Value
An enriched MoleculeExperiment (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