### Variant Tools

A tool for generating variant matrices of multiple individuals produced by 
the CLC Genomics Workbench.

For all processing options type ./varianttools -h in the bin directory.

Three input options are mandatory:

* A fasta file containing the reference sequence (option -f *<file>*).
* A directory containing a set of csv files with the called variants
  of different individuals. (option -i *<dir>*).
* The data type of the input data which can either be "SNP" or "INDEL" (option -t *type*).

The headers of the csv files have to conform to the table header specifications
for called variants of the CLC Genomics Workbench version 7.5 or higher.

### Variant Tools

A tool for generating variant matrices of multiple individuals produced by 
the CLC Genomics Workbench.

For all processing options type ./varianttools -h in the bin directory.

Three input options are mandatory:

* A fasta file containing the reference sequence (option -f *file*).
* A directory containing a set of csv files with the called variants
  of different individuals. (option -i *dir*).
* The data type of the input data which can either be "SNP" or "INDEL" (option -t *type*).

The headers of the csv files have to conform to the table header specifications
for called variants of the CLC Genomics Workbench version 7.5 or higher.

Make file and dir visible in markdown.
Make file and dir visible in markdown.
