what do you mean by BGI? do you just mean the sequencing company (they came on google); unless they specifically use a method besides a modern Illumina NextSeq they I am unsure the company is relevant.

have you done any downstream analysis? does it look like good data quality? low fraction reads in cells can mean an issue with ambient RNA, likely a result of cell death. You might be seeing this manifesting in your cellranger output. my apologies if this is condescending, unsure what stage of analysis you're at here

Try Kallisto bustools.

https://www.kallistobus.tools