Package: hlaR 1.0.0

Joan Zhang

hlaR: Tools for HLA Data

A streamlined tool for eplet analysis of donor and recipient HLA (human leukocyte antigen) mismatch. Messy, low-resolution HLA typing data is cleaned, and imputed to high-resolution using the NMDP (National Marrow Donor Program) haplotype reference database <https://haplostats.org/haplostats>. High resolution data is analyzed for overall or single antigen eplet mismatch using a reference table (currently supporting 'HLAMatchMaker' <http://www.epitopes.net> versions 2 and 3). Data can enter or exit the workflow at different points depending on the user's aims and initial data quality.

Authors:Joan Zhang [aut, cre], Aileen Johnson [aut], Christian P Larsen [cph, aut]

hlaR_1.0.0.tar.gz
hlaR_1.0.0.zip(r-4.5)hlaR_1.0.0.zip(r-4.4)hlaR_1.0.0.zip(r-4.3)
hlaR_1.0.0.tgz(r-4.4-any)hlaR_1.0.0.tgz(r-4.3-any)
hlaR_1.0.0.tar.gz(r-4.5-noble)hlaR_1.0.0.tar.gz(r-4.4-noble)
hlaR_1.0.0.tgz(r-4.4-emscripten)hlaR_1.0.0.tgz(r-4.3-emscripten)
hlaR.pdf |hlaR.html✨
hlaR/json (API)

Peer review:

Bug tracker:https://github.com/larsenlab/hlar/issues

On CRAN:

8 exports 7 stars 1.40 score 152 dependencies 9 scripts 235 downloads

Last updated 2 years agofrom:a7fec958e0. Checks:OK: 7. Indexed: yes.

Exports:CalAlleleMismFreqCalAlleleTopNCalEpletMHCICalEpletMHCIICleanAlleleCountAlleleMismEvalAlleleMismImputeHaplo

Dependencies:askpassbackportsbase64encbitbit64blobbrewbriobroombslibcachemcallrcellrangerclicliprcolorspacecommonmarkconflictedcpp11crayoncredentialscurldata.tableDBIdbplyrdescdevtoolsdiffobjdigestdownlitdplyrdtplyrellipsisevaluatefansifarverfastmapfontawesomeforcatsfsgarglegenericsgertggplot2ghgitcredsgluegoogledrivegooglesheets4gtablehavenhighrhmshtmltoolshtmlwidgetshttpuvhttrhttr2idsiniisobandjanitorjquerylibjsonliteknitrlabelinglaterlatticelifecyclelubridatemagrittrMASSMatrixmemoisemgcvmimeminiUImodelrmunsellnlmeopensslpillarpkgbuildpkgconfigpkgdownpkgloadplyrpraiseprettyunitsprocessxprofvisprogresspromisespspurrrR6raggrappdirsrcmdcheckRColorBrewerRcppreadrreadxlrematchrematch2remotesreprexreshape2rlangrmarkdownroxygen2rprojrootrstudioapirversionsrvestsassscalesschoolmathselectrsessioninfoshinysnakecasesourcetoolsstringistringrsyssystemfontstestthattextshapingtibbletidyrtidyselecttidyversetimechangetinytextzdburlcheckerusethisutf8uuidvctrsviridisLitevroomwaldowhiskerwithrxfunxml2xopenxtableyamlzip