combine feature data information
Examples
g <- GiottoData::loadGiottoMini("vizgen")
#> 1. read Giotto object
#> 2. read Giotto feature information
#> 3. read Giotto spatial information
#> 3.1 read Giotto spatial shape information
#> 3.2 read Giotto spatial centroid information
#> 3.3 read Giotto spatial overlap information
#> 4. read Giotto image information
#> python already initialized in this session
#> active environment : 'giotto_env'
#> python version : 3.10
#> checking default envname 'giotto_env'
#> a system default python environment was found
#> Using python path:
#> "/usr/share/miniconda/envs/giotto_env/bin/python"
combineFeatureOverlapData(g, poly_info = "aggregate")
#> $rna
#> Key: <feat_ID>
#> feat_ID nr_cells perc_cells total_expr mean_expr mean_expr_det hvg_orig
#> <char> <int> <num> <num> <num> <num> <char>
#> 1: Abcc9 10 2.164502 71.39463 0.15453382 7.139463 no
#> 2: Abcc9 10 2.164502 71.39463 0.15453382 7.139463 no
#> 3: Abcc9 10 2.164502 71.39463 0.15453382 7.139463 no
#> 4: Abcc9 10 2.164502 71.39463 0.15453382 7.139463 no
#> 5: Abcc9 10 2.164502 71.39463 0.15453382 7.139463 no
#> ---
#> 32067: Vmn2r1 7 1.515152 41.22525 0.08923213 5.889321 no
#> 32068: Vmn2r1 7 1.515152 41.22525 0.08923213 5.889321 no
#> 32069: Vmn2r1 7 1.515152 41.22525 0.08923213 5.889321 no
#> 32070: Vmn2r1 7 1.515152 41.22525 0.08923213 5.889321 no
#> 32071: Vmn2r1 7 1.515152 41.22525 0.08923213 5.889321 no
#> var hvf geom part x y hole
#> <num> <char> <int> <num> <num> <num> <num>
#> 1: 3.2630074 yes 327 1 6434.212 -4994.575 0
#> 2: 3.2630074 yes 372 1 6435.822 -4993.068 0
#> 3: 3.2630074 yes 387 1 6436.190 -4993.599 0
#> 4: 3.2630074 yes 389 1 6436.225 -4994.331 0
#> 5: 3.2630074 yes 3476 1 6583.026 -5109.118 0
#> ---
#> 32067: 0.9765725 no 12671 1 6835.198 -4821.361 0
#> 32068: 0.9765725 no 13128 1 6850.250 -4791.958 0
#> 32069: 0.9765725 no 15407 1 6432.064 -5016.469 0
#> 32070: 0.9765725 no 21939 1 6742.455 -4972.980 0
#> 32071: 0.9765725 no 31289 1 6876.786 -5032.958 0
#> poly_ID feat_ID_uniq stack poly_info
#> <char> <num> <num> <char>
#> 1: 304842190541754537761816256358565562302 1414 1 aggregate
#> 2: 304842190541754537761816256358565562302 1534 1 aggregate
#> 3: 304842190541754537761816256358565562302 1574 1 aggregate
#> 4: 304842190541754537761816256358565562302 1578 1 aggregate
#> 5: 183227745956657225549068107012033843521 8860 1 aggregate
#> ---
#> 32067: 134146760472988945324695838070256730703 30405 1 aggregate
#> 32068: 248026342734562151407765229569772513183 31685 1 aggregate
#> 32069: 21934936165997373583174173761929761438 37793 2 aggregate
#> 32070: 293490979527928845906184572736930005899 53817 2 aggregate
#> 32071: 236938169420664432126575547704304293443 78156 2 aggregate
#> feat
#> <char>
#> 1: rna
#> 2: rna
#> 3: rna
#> 4: rna
#> 5: rna
#> ---
#> 32067: rna
#> 32068: rna
#> 32069: rna
#> 32070: rna
#> 32071: rna
#>