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SampleCorrelation tool help

SampleCorrelation (0.1-420-g3536bb0)

Calculates the variant overlap and correlation of two variant lists.

Mandatory parameters:
  -in1 <file>     Input variant list in TSV format.
  -in2 <file>     Input variant list in TSV format.

Optional parameters:
  -out <file>     Output file. If unset, writes to STDOUT.
                  Default value: ''
  -bam            Input files are BAM files instead of TSV files.
                  Default value: 'false'
  -window <int>   Window to consider around indel positions to compensate for differing alignments (TSV input).
                  Default value: '100'
  -min_cov <int>  Minimum coverage to consider a SNP for the analysis. (BAM input)
                  Default value: '30'
  -max_snps <int> The maximum number of high-coverage SNPs to analyze. 0 means unlimited. (BAM input)
                  Default value: '500'

Special parameters:
  --help          Shows this help and exits.
  --version       Prints version and exits.
  --changelog     Prints changeloge and exits.
  --tdx           Writes a Tool Definition Xml file. The file name is the application name with the suffix '.tdx'.

SampleCorrelation changelog

SampleCorrelation 0.1-420-g3536bb0

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