after having classified reads from xenograft experiment using xenome. I try aligning human reads using STAR aligner.
Pseudo code looks like this: STAR --genomeDir genome --readFilesIn human_1.fastq human_2.fastq
Then I get the error:
EXITING because of FATAL ERROR in input reads: unknown file format: the read ID should start with @ or >
Apr 11 12:13:31 ...... FATAL ERROR, exiting [samopen] SAM header is present: 25 sequences. [sam_read1] reference 'SN:chrM LN:16571 66
What does this error mean? Are the human_*.fastq xenome outputs in a format unrecognizable by STAR?