extract split-read from bam/cram file

Question

[obaid_lama]

Hi,

Im a SC student, i have no knowledge in this filed and I want to extract split-read from cram file can anyone help me please?

thanks

[GenoMax]

By split-reads do you mean chimeric alignments (where one part of the read is aligned to one chr and other somewhere else)?

[Carlo Yague]

Could be related to this question about spliced reads: How To Extract Spliced Rnaseq Reads