WebMay 20, 2024 · For both WES data and RNA-seq data, OptiType showed the highest accuracy for HLA-Ia typing than the other 3 programs at 2-digit and 4-digit resolution. Additionally, HLA typing accuracy from WES data was higher than from RNA-seq data (99.11% for WES data versus 96.42% for RNA-seq data). The accuracy of HLA-Ia typing by OptiType can … WebNov 2, 2024 · Optitype 软件安装. 最开始尝试使用docker,无奈悲剧的失败,发现bioconda有这个软件的,于是上conda,感觉比docker更方便呢。还有一个好处是,win10家庭版不 …
lohhla检测HLA区域LOH - 生物信息文件夹 - GitHub Pages
WebAug 19, 2024 · HLA_A_type1 - the identity of allele 1 HLA_A_type2 - the identity of allele 2 Pval_unique - this is a p-value relating to allelic imbalance LossAllele - this corresponds to the HLA allele that is subject to loss KeptAllele - this corresponds to the HLA allele that is not subject to loss HLA_type1copyNum_withBAFBin - the estimated raw copy number of HLA … scripps health plan service
mskcc/lohhla - Github
Web1.通过singularity在本地安装optitype后传至服务器. singularity是一个开放源码容器平台,可以在没有root权限或操作系统不同的情况下通过类似docker的容器共享代码、软件、docker … WebSzolek,A. et al. (2014) OptiType: precision HLA typing from next-generation sequencing data. Bioinformatics, 30, 3310–3316. About. NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data. Resources. Readme License. GPL-3.0 license Stars. 11 stars Watchers. 7 watching WebTumor purity is estimated by ASCAT and Sequenza and is used to derive the clonality measure for the predicted neoantigens. Tumor mutational burden (TMB) is calculated for all variants over the entire read covered genome and for coding variants on read covered exons. HLA class I and class II alleles are predicted with OptiType and HLA-HD. scripps health patient relations