Tophat (v1.0.11) generates a SAM format file, but when I try to generate a BAM file from it to use in samtools tview I get:
samtools view -b -S -o accepted_hits.bam accepted_hits.sam
[samopen] no @SQ lines in the header.
[sam_read1] missing header? Abort!
Anyone got ideas on how to get round this?
samtools view -b -S -o accepted_hits.bam accepted_hits.sam
[samopen] no @SQ lines in the header.
[sam_read1] missing header? Abort!
Anyone got ideas on how to get round this?
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