Doubt in output files ?

[GowthamGV22]

Respected one, I have installed stpipeline and run the command. It generated a read.bed stats.csv and log.txt file.
actually, for my work, I need bam files that are generated after star for my Spatial data, and I need bam further different analysis. That bam should have information on neighbor spatial cells data. Can you help me with how to get bam here or what STAR command, especially for ST data, to get my desired bam files? Hoping for reply.

[jfnavarro]

You can use a flag to keep intermediate files like the BAM files that you refer to. Take a look to the list of options with --help.