samtools reads 过滤

Filter Alignments for unmapped pairs

1. An unmapped read whose mate is mapped.

samtools view -u  -f 4 -F264 alignments.bam  > tmps1.bam

2. A mapped read who’s mate is unmapped.

samtools view -u -f 8 -F 260 alignments.bam  > tmps2.bam

3. Both reads of the pair are unmapped.

samtools view -u -f 12 -F 256 alignments.bam > tmps3.bam