missing output files

[WeiWei060512]

Hi team,

Thanks for sharing this very useful tool. I ran mgatk tenx using my own scATACseq data. mgatk tenx -i possorted_bam.bam -n mytest -o mytest_mgatk -c 8 -bt CB -b barcodes.tsv

I can only generate 9 files in Final folder (*.A.txt.gz, *.C.txt.gz, *.G.txt.gz, *.T.txt.gz, *.coverage.txt.gz, *.depthTable.txt, **_refAllele.txt, *.rds, .signac.rds), 3 files were missing (.variant_stats.tsv.gz, *.cell_heteroplasmic_df.tsv.gz, *.vmr_strand_plot.png). The code ran successfully without any error message. The variants and heteroplasmies files are the ones I'm interested the most.

Could you let me know how to fix it and generate the full set of outputs, please?

Many thanks, Wei