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% VCFSAMPLEDIFF(1) vcfsamplediff (vcflib) | vcfsamplediff (VCF transformation)
% Erik Garrison and vcflib contributors
# NAME
**vcfsamplediff**
# SYNOPSIS
**vcfsamplediff** [options] <tag> <sample> <sample> [ <sample> ... ] <vcf file>
# DESCRIPTION
Establish putative somatic variants using reported differences between germline and somatic samples. Tags each record where the listed sample genotypes differ with <tag>. The first sample is assumed to be germline, the second somatic. Each record is tagged with <tag>={germline,somatic,loh} to specify the type of variant given the genotype difference between the two samples.
# OPTIONS
```
options:
-s --strict Require that no observations in the germline support the somatic alternate.
Type: transformation
```
# EXIT VALUES
**0**
: Success
**not 0**
: Failure
# SEE ALSO
[vcflib](./vcflib.md)(1)
# OTHER
## Source code
[vcfsamplediff.cpp](https://github.com/vcflib/vcflib/blob/master/src/vcfsamplediff.cpp)
# LICENSE
Copyright 2011-2022 (C) Erik Garrison and vcflib contributors. MIT licensed.
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