Cheng-Kai Shiau

Hi Hsiao-Lin, Currently, the scanner have no parameter to output reads containing both 5' and 3' adaptor. Thank you for your suggestion and I'll discuss this with my mentor. For...

Hi Hsiao-Lin, Your commands look good except the last "&" symbol, which means background running without waiting. Please make sure the previous command is done when you're running the next...

Hi Hsiao-Lin, Is it convenient to provide the following log and meta files ? (1) scanner.log.txt (2) assigner.log.txt (3) curator.log.txt (4) a couple of lines of processed.fastq.gz (5) a couple...

Hi Evan, Thanks for the feedback. We've noticed that, in some case, the curator could get stuck because of unexpectedly high read depth of certain genes. No matter this high...

Hi Nick-youngblut, Thank you for your precious suggestion. It makes sense, but I cannot make the decision. I'll discuss with my mentor for the bioconda or Dockr release. I'll review...

Hi Dongin, Thanks for the feedback. Looks like that the data type got wrong. I'll review the code. Regards, Cheng-Kai

Hi Kyung-Tae, Thanks for raising the issue. The pattern is deprecated for python 3.12. I've updated the pattern. Please try it again for the new version. Regards, Cheng-Kai

Hi Kyung-Tae, This error could be due to some error during running longshot. By default, scNanoGPS delete the meta files to save storage. Could you please try running reporter_SNV.py with...

Hi Kyung-Tae, Your environment sounds good. The empty mpileup result is not normal. Please check files "longshot.output..log" and "longshot.output..vcf.gz" If you find any error in "longshot.output..log", then I guess your...