How to create SJ.out.tab files from bam files

Question

[freeustand]

I downloaded thousands of RNA-Seq bam files aligned using STAR in 2-pass mode. For some parts of my analysis, I need SJ.out.tab files for each sample that are typically generated during STAR alignment process. But I don't have these files because I didn't do the alignment by myself and I don't have the original FASTQ files. Is there any way to create SJ.out.tab files from bam files?

[h.mon]

STAR has a mailing list and Alex Dobin (STAR's author) is very responsive, you should try asking there. But I am afraid you will have to extract the reads from the bam file and align again.