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|Interface||Command line interface|
|Restrictions to use||Academic or non-commercial use|
Python, cPickle, Bowtie
No version available
- person_outline Yu Bai
Publication for PHLAT
Immunopharmacogenomics towards personalized cancer immunotherapy targeting neoantigens
[…] e the accuracy of these programs. Among these algorithms, OptiType showed the highest accuracy of 97.2% for HLA class I alleles at the second field level, followed by 94.0% in Polysolver and 85.6% in PHLAT. […]
A Recurrent Mutation in Anaplastic Lymphoma Kinase with Distinct Neoepitope Conformations
[…] at a rate of ~6 h/sample on four Microsoft Azure machines (Supplementary Data S1 in Supplementary Material). MHC haplotypes for MHC class I and MHC class II are called from the sequencing data using PHLAT (). The haplotype for a sample is decided based on a consensus decision of the three input haplotypes. Somatic point mutations were called using a panel of five mutation callers, MuTECT (), MuSE […]
Comparison of exome based HLA class I genotyping tools: identification of platform specific genotyping errors
[…] 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 screening, using 961 samples from the 1000 Genomes Project database.One of the common platform-specific miscalls is from HLA-A*25: […]
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