Error during LDrefinement

[Thapeachydude]

Hi,

I'm encountering an error during the final step of the SNV calling tutorial for scRNA-Seq data. Specifically, I get:

[2024-05-21 17:09:53,243] INFO     Monopogen.py Run LD refinement ...
Rscript /cluster/work/moor/marcel_prj/Monopogen/apps/../src/LDrefinement.R  /cluster/work/moor/loop_prj_analysis/monopogen/bam/somatic/chr11.gl.filter.hc.cell.mat.gz /cluster/work/moor/loop_prj_analysis/monopogen/bam/somatic/ chr11
Error in train_x_neg[, colnames(train_x_neg) == "QS"] :
  incorrect number of dimensions
Calls: SVM_train
Execution halted
[2024-05-21 17:10:23,988] ERROR    Monopogen.py In LDrefinement step chr11 failed!
[2024-05-21 17:10:23,989] ERROR    Monopogen.py Failed! See instructions above.

Any insights into what is causing this would be much appreciated.

Many thanks and best regards : )