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Comment: My fastq files(paired end) have different read number
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Oh, I see, Thank you
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Yes, this is normal because depending on how you generate the bam file, the non-aligning reads are saved in the .bam file along the properl…
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You need to run bcftools index on your vcf file before running the suggested command.
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I think you are fine, no worries. Will you go ahead an align the fastq files to a genome? Do you know how?
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Hi there,
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duplicate of https://www.biostars.org/p/9558127/
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