Package: SMDIC
Type: Package
Title: Identification of Somatic Mutation-Driven Immune Cells
Version: 0.1.6
Authors@R: c(
    person("Junwei", "Han", email = "hanjunwei1981@163.com", role = "cre"),
    person("Baotong", "Zheng", email = "btzheng1116@163.com", role = "aut"))
Maintainer: Junwei Han <hanjunwei1981@163.com>
Description: A computing tool is developed to automated identify
        somatic mutation-driven immune cells. The operation modes
        including: i) inferring the relative abundance matrix of
        tumor-infiltrating immune cells and integrating it with a
        particular gene mutation status, ii) detecting differential
        immune cells with respect to the gene mutation status and
        converting the abundance matrix of significant differential
        immune cell into two binary matrices (one for up-regulated and
        one for down-regulated), iii) identifying somatic
        mutation-driven immune cells by comparing the gene mutation
        status with each immune cell in the binary matrices across all
        samples, and iv) visualization of immune cell abundance of
        samples in different mutation status..
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.2
Depends: R (>= 4.3.0), GSVA
biocViews:
Imports: samr, e1071, parallel, preprocessCore, pheatmap, maftools,
        grDevices, survival, survminer, MASS, pracma, stats,
        RColorBrewer, backports
Suggests: knitr, rmarkdown, R.utils
VignetteBuilder: knitr
Config/pak/sysreqs: cmake make libmagick++-dev gsfonts libbz2-dev
        libicu-dev libjpeg-dev liblzma-dev libpng-dev libuv1-dev
        libxml2-dev libssl-dev xz-utils zlib1g-dev
Repository: https://hanjunwei-lab.r-universe.dev
Date/Publication: 2024-10-17 01:15:49 UTC
RemoteUrl: https://github.com/hanjunwei-lab/smdic
RemoteRef: HEAD
RemoteSha: 70ba7d1dc794c4a4cf862cb7f0d0f75130d68c67
NeedsCompilation: no
Packaged: 2026-06-13 08:43:03 UTC; root
Author: Junwei Han [cre],
  Baotong Zheng [aut]