Comments (2)
I solve this problem.
./samtools view -h /home/ubuntu/RNA/ATL005.Aligned.sortedByCoord.out.bam | grep -v "NC_007605" | samtools view -bS - > /home/ubuntu/RNA/ATL005.Contig_out.Aligned.sortedByCoord.out.bam
Thanks.
from arriba.
When you run Arriba, you should use the same assembly (FastA file) that was used to generate the BAM file. This way the contigs are consistent and the error is avoided.
from arriba.
Related Issues (20)
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