unexpected result files

[lorbaer]

Hi there,
we used the command
./TENET OB_temp.csv 10 OB_PAGApseudotime.txt OB_PAGAcell_select.txt 1

The input file included 3000 genes and 6424 cells.
We expected the matrix output file as usual. However we got
10 files called:
TE_out_aaa.csv
TE_out_aab.csv
...
TE_out_aaj.csv

They all look similar

1, 2, 0.00016435724617081058,0.00017018181705232195
1,3,9.219382988825285e-05,0.001077501635620558
1,4,0.00026165766902638675,0.0008222731935857703
1,5,0.0,2.0344534011729684e-06
1,6,2.1777893709535886e-05,2.2460595471730527e-05
1,7,0.0,0.0
1,8,2.1006674256813516e-07,2.100340090475586e-07
1,9,2.1006674256813426e-07,2.100340090475579e-07
1,10,1.400117626303666e-07,1.4001176263036658e-07
1,11,0.001054885122915543,1.105408979823489e-05
1,12,1.2648365209598076e-06,1.2616793584688755e-06

The last files ends with
2999,3000

It seems like those values depict the indices of the matrix. However, we would then expect only one value for each gene-pair.

Why there are two and why didn't we got the expected matrix output?

cheers

[neocaleb]

Sorry for the late response.
I am not sure why there is no matrix file. I guess it is because the last four lines of codes were not performed due to the OS difference.
You can just run the following lines if you use linux:

cat outputs/*.csv > TE_result_all.csv
chmod a+x makeTEasMatrix.py
python makeTEasMatrix.py

And the reason why there is two values is that the result GRN matrix is asymmetric which means the network is directed.