Re: [Samtools-help] calmd and lower case characters

2018-04-06 Thread ernesto.picardi
> Il giorno 06 apr 2018, alle ore 14:54, James Bonfield ha > scritto: > > On Thu, Apr 05, 2018 at 01:02:30PM +0200, ernesto.picardi wrote: >> I'm using samtools calmd to add the MD tag to my bam file generated using >> minimap2. >> The added MD tags included lower case characters. Is this corr

Re: [Samtools-help] calmd and lower case characters

2018-04-06 Thread James Bonfield
On Thu, Apr 05, 2018 at 01:02:30PM +0200, ernesto.picardi wrote: > I'm using samtools calmd to add the MD tag to my bam file generated using > minimap2. > The added MD tags included lower case characters. Is this correct? According > to SAM specifications, MD should contain only upper case charac