reapr-seqrename - renames all sequences in a BAM file

       <renamefile> is the file .info made by facheck, which contains the mapping of old name to new name.

       reapr-seqrename - renames all sequences in a BAM file

reapr(1)

                                                                                              REAPR-SEQRENAME(1)

reaprseqrename <renamefile> <in.bam> <out.bam>