Mehrdad Bakhtiari

Hello, Could you try to run `advntr addmodel -r sus.fa -p GGGGTCATG -s 14859 -e 14889 -c chr1 -m my_db.db`? without `-m` parameter it tries to create the database in...

Hi, we haven't extensively tested and measured the accuracy on Nanopore data. However, you can use the file related to pacbio and it should work reasonably well. Although they have...

Yes, `--nanopore` is not fully tested and current version won't let the code run. But I assume by pacbio parameters you can still get a relatively good results and it...

Hi Nicolas, Could you please provide $Ncpu as well? I can probably reproduce the error easier with it and it helps me to debug. Also, now I noticed that you...

Yes. We can do it for MUC1 with accurate short reads but for long error prone reads our approach is not the best (shorter reads are not disadvantage for us...

Hi Parsoa, I think if you use the database file for PacBio (hg19_selected_VNTRs_Pacbio.db) instead of hg38_selected_VNTRs_Illumina.db it will work. It has other loci that works with `--pacbio` which don't exist...

Hello, Could you please check the content of vntr_data that you downloaded? I guess you should either use `-m hg19_selected_VNTRs_Pacbio.db` or `-m hg19_genic_VNTRs.db` (probably not `-m vntr_data/hg19_VNTRs.db`) depending on which...

Great! Please use `--outfmt bed --outfile sample.bed` to get the output. There is a typo in the command you wrote which doesn't quite specify the output format and output file....

Sorry about confusion. I thought you are using Linux, conda was working on Mac when I tested. @Jong-hun-Park Can you look into the issue when conda doesn't install the latest...

Hello, I'm glad you could finally install a newer version. Yes this output basically means adVNTR is unable to genotype these two loci. Could you please email me the log...