Hello,
I have used samtools mpileup, and bcftools call/filter (v1.5) to call SNPs between 4 samples and a de novo reference transcriptome.
I'm interested in extracting SNPs that occur between individual samples, and not between the samples and the reference. I would like to see how different each sample is different, or similar, from one another. Is this possible? I haven't been able to find much documentation on how one would approach this.
Any info would be greatly appreciated.
Cheers.
I have used samtools mpileup, and bcftools call/filter (v1.5) to call SNPs between 4 samples and a de novo reference transcriptome.
I'm interested in extracting SNPs that occur between individual samples, and not between the samples and the reference. I would like to see how different each sample is different, or similar, from one another. Is this possible? I haven't been able to find much documentation on how one would approach this.
Any info would be greatly appreciated.
Cheers.
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