TIminer: NGS data mining pipeline for cancer immunology and immunotherapy.

Summary: Recently, a number of powerful computational tools for dissecting tumor-immune cell interactions from next-generation sequencing data have been developed. However, the assembly of analytical pipelines and execution of multi-step workflows are laborious and involve a large number of intermediate steps with many dependencies and parameter settings. Here we present TIminer, an easy-to-use computational pipeline for mining tumor-immune cell interactions from next-generation sequencing data. TIminer enables integrative immunogenomic analyses, including: human leukocyte antigens typing, neoantigen prediction, characterization of immune infiltrates and quantification of tumor immunogenicity.

Availability and implementation: TIminer is freely available at https://icbi.i-med.ac.at/software/timiner/timiner.shtml.

Contact: [email protected].

Supplementary information: Supplementary data are available at Bioinformatics online.