Comments (1)
I think I figured out the root cause for this.
Actually, the order in which genes are passed changes the results.
Case 1
Expression matrix.
0610007L01Rik 0610010K14Rik 0910001L09Rik 1100001G20Rik 1110004E09Rik 1110007A13Rik 1110013L07Rik 1190002H23Rik 1190007F08Rik 1200002N14Rik
index
0 -0.636101 -1.184288 -0.696000 -0.190556 -0.586632 -0.775190 -0.269762 -0.617464 -0.424003 -0.155427
1 -0.636101 -0.268231 0.412374 -0.190556 0.887191 -0.775190 -0.269762 0.447862 -0.424003 4.575706
2 0.269204 0.249596 0.054724 -0.190556 1.142911 1.001526 -0.269762 -0.617464 -0.424003 -0.155427
3 0.238592 0.210235 0.029340 -0.190556 0.377865 0.516827 1.004492 1.343563 -0.424003 -0.155427
4 -0.636101 1.200998 -0.031379 -0.190556 0.965279 -0.094555 -0.269762 0.504306 0.701254 -0.155427
GRNBoost2 output
TF target importance
3 1100001G20Rik 1190002H23Rik 54.013678
6 1190002H23Rik 1100001G20Rik 43.372689
4 1110004E09Rik 1190007F08Rik 40.087843
1 0610010K14Rik 1190007F08Rik 34.482150
0 0610007L01Rik 1190007F08Rik 28.552018
Case 2
Expression matrix (shuffling gene order)
0910001L09Rik 0610010K14Rik 1190007F08Rik 1110004E09Rik 1100001G20Rik 0610007L01Rik 1110013L07Rik 1110007A13Rik 1200002N14Rik 1190002H23Rik
index
0 -0.696000 -1.184288 -0.424003 -0.586632 -0.190556 -0.636101 -0.269762 -0.775190 -0.155427 -0.617464
1 0.412374 -0.268231 -0.424003 0.887191 -0.190556 -0.636101 -0.269762 -0.775190 4.575706 0.447862
2 0.054724 0.249596 -0.424003 1.142911 -0.190556 0.269204 -0.269762 1.001526 -0.155427 -0.617464
3 0.029340 0.210235 -0.424003 0.377865 -0.190556 0.238592 1.004492 0.516827 -0.155427 1.343563
4 -0.031379 1.200998 0.701254 0.965279 -0.190556 -0.636101 -0.269762 -0.094555 -0.155427 0.504306
GRNBoost2 output
TF target importance
4 1100001G20Rik 1190002H23Rik 52.907365
2 1110004E09Rik 1190007F08Rik 23.055227
0 0910001L09Rik 1190002H23Rik 22.537507
5 0610007L01Rik 1190002H23Rik 18.553030
1 0610010K14Rik 1190007F08Rik 18.310874
Any comments on why this is hapenning?
from arboreto.
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from arboreto.