HLAforest specifications


Unique identifier OMICS_06170
Name HLAforest
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Programming languages Perl
License Apache License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes


No version available

Publication for HLAforest

HLAforest citations


Immunopharmacogenomics towards personalized cancer immunotherapy targeting neoantigens

Cancer Sci
PMCID: 5834780
PMID: 29288513
DOI: 10.1111/cas.13498

[…] l tools have been developed to obtain HLA allele information from genome‐wide sequencing data (whole‐exome, whole‐genome, and RNA sequencing data), including OptiType, Polysolver, PHLAT, HLAreporter, HLAforest, HLAminer, and seq2HLA. We have tested 961 whole‐exome data from the 1000 Genomes Project to evaluate the accuracy of these programs. Among these algorithms, OptiType showed the highest accu […]


Comparison of exome based HLA class I genotyping tools: identification of platform specific genotyping errors

J Hum Genet
PMCID: 5334549
PMID: 27881843
DOI: 10.1038/jhg.2016.141

[…] In this study, we evaluated seven algorithms for HLA typing using whole-exome data: Optitype, Polysolver, PHLAT, HLAreporter, HLAforest, HLAminer and seq2HLA, using 12 clinical samples, and further evaluated three of them, Optitype, Polysolver and PHLAT, which displayed the highest accuracy (>90%) in the preliminary screenin […]

HLAforest institution(s)
Biomolecular Engineering Department, Baskin School of Engineering, University of California, Santa Cruz, Santa Cruz, CA, USA

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