User: flystar233

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flystar2330
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Posts by flystar233

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samtools view sample.bam >sample2.sam : lost the header
... First , samtools view -Sb sample.sam >sample.bam Second, samtools view sample.bam >sample2.sam I used this method: sam2bam2sam found that the head of the original sam file was lost at the end. So was it lost in sam2bam or bam2sam? ps:sample.sam have header information,sample2.sam ...
samtools written 3 months ago by flystar2330 • updated 3 months ago by finswimmer9.8k
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Comment: C: bwa mem -R or samtools -T
... oh,sorry,please see code: samtools view -SbT genome.fa sample.bam >uniq.bam - ...
written 3 months ago by flystar2330 • updated 3 months ago by finswimmer9.8k
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bwa mem -R or samtools view -T
... As we all know, bam file required by GATK need header in it. We can explicitly add it via the -R parameter.But,if you didn't use -R ,you also can use samtools -T genome.fa to add header. What is the difference between the two? ...
bwa written 3 months ago by flystar2330

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