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Getting StartedΒΆ

pVACvector provides a set of example data to show the expected input and output files. You can download the data set by running the pvacfuse download_example_data command.

There are two option as to how to run pVACvector depending on the input file type used. You can either use a pVACseq output TSV of neoepitopes or a FASTA file of peptide sequences.

Here is an example of how to run pVACvector with a pVACseq output TSV:

pvacvector run \
<example_data_dir>/input.tsv \
Test \
H-2-Kb \
NetMHC \
<output_dir> \
-e 8 \
-v <example_data_dir>/input.vcf
--keep-tmp-files

In this example pVACvector is run with an input FASTA file:

pvacvector run \
<example_data_dir>/input.fa \
Test \
H-2-Kb \
NetMHC \
<output_dir> \
-e 8 \
--keep-tmp-files

A detailed description of all command options can be found on the Usage page.