Remove Gene Annotation¶
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removeGeneAnnotation()
Removes the gene annotation of a Giotto object.
removeGeneAnnotation(gobject, columns = NULL, return_gobject = TRUE)
Arguments¶
gobject |
Giotto object |
columns |
names of columns to remove |
return_gobject |
boolean: return Giotto object (default = TRUE) |
Value¶
A Giotto object.
Details¶
If return_gobject = FALSE, it will return the gene metadata.
Examples¶
data(mini_giotto_single_cell) # load full mini giotto object
# show gene metadata
fDataDT(mini_giotto_single_cell)
#> gene_ID nr_cells perc_cells total_expr mean_expr mean_expr_det hvg
#> 1: Cldn5 6 30 48.92244 2.446122 8.153740 yes
#> 2: Rtn4r 13 65 110.74429 5.537215 8.518792 yes
#> 3: Vgf 15 75 132.75484 6.637742 8.850322 no
#> 4: Lingo1 15 75 147.21239 7.360619 9.814159 no
#> 5: Slc17a7 17 85 170.21651 8.510826 10.012736 no
#> 6: Lynx1 10 50 78.57677 3.928838 7.857677 no
#> 7: Atp1a1 17 85 165.49466 8.274733 9.734980 no
#> 8: Scg3 10 50 83.22481 4.161240 8.322481 yes
#> 9: Myh9 9 45 74.30740 3.715370 8.256378 no
#> 10: Pcp4l1 11 55 89.43319 4.471660 8.130290 no
#> 11: Pygb 11 55 93.51979 4.675990 8.501799 no
#> 12: Col4a2 10 50 82.04459 4.102229 8.204459 yes
#> 13: Sdc4 10 50 83.86661 4.193330 8.386661 yes
#> 14: Csf1r 9 45 68.17674 3.408837 7.575193 no
#> 15: Mtss1l 12 60 97.81416 4.890708 8.151180 yes
#> 16: Slc32a1 5 25 45.07783 2.253892 9.015567 yes
#> 17: Adarb2 6 30 44.55620 2.227810 7.426034 yes
#> 18: Abtb2 7 35 51.22157 2.561079 7.317368 no
#> 19: Htra1 10 50 83.31959 4.165979 8.331959 yes
#> 20: Cplx1 15 75 128.19130 6.409565 8.546087 no
# remove nr_cells column
mini_giotto_single_cell = removeGeneAnnotation(mini_giotto_single_cell,
columns = 'nr_cells')