Hi! The new version of bcftools gives the following output:
$ bcftools call
About: SNP/indel variant calling from VCF/BCF. To be used in conjunction with
samtools mpileup.
This command replaces the former "bcftools view" caller. Some of the
original
functionality has been temporarily lost in the process of transition
to htslib,
but will be added back on popular demand. The original calling model
can be
invoked with the -c option.
I'd like to express my wishes for the "-1 INT" option for the old version of
"bcftools view" to find its way to the "bcftools call" command (or perhaps some
other option where the samples don't need to be ordered in a particular way).
Best,
Rasmus Borup Hansen
Intomics is a contract research organization specialized in deriving core
biological insight from large scale data. We help our clients in the
pharmaceutical industry develop tomorrow's medicines better, faster, and
cheaper through optimized use of biomedical data.
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Hansen, Rasmus Borup Intomics - from data to biology
System Administrator Diplomvej 377
Scientific Programmer DK-2800 Kgs. Lyngby
Denmark
E: r...@intomics.com W: http://www.intomics.com/
P: +45 5167 7972 P: +45 8880 7979
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