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Old 05-04-2018, 12:48 PM   #4
Richard Finney
Senior Member
Location: bethesda

Join Date: Feb 2009
Posts: 700

NC_000016 is a name used for "chr16".
This the "official" name used at NCBI :

You have to convert the "NCBI name" to "chr" names (or vice versa).

There are many ways to rename fields. You can always brute force it using a custom simple program or script using your favorite programming language : bash, python, perl, C, etc.

Any easy way would be to reheader the bam file. Please see samtools documentation for this.
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