Package: STREAK
Type: Package
Title: Receptor Abundance Estimation using Feature Selection and Gene
        Set Scoring
Version: 1.0.0
Authors@R: c(person("H. Robert", "Frost", email = "hildreth.r.frost@dartmouth.edu", role = c("aut")),
    person("Azka", "Javaid", email = "azka.javaid.gr@dartmouth.edu", role = c("aut", "cre")))
Maintainer: Azka Javaid <azka.javaid.gr@dartmouth.edu>
Description: Performs receptor abundance estimation for single cell RNA-sequencing data using a supervised feature selection mechanism and a thresholded gene set scoring procedure. Seurat's normalization method is described in: Hao et al., (2021) <doi:10.1016/j.cell.2021.04.048>, Stuart et al., (2019) <doi:10.1016/j.cell.2019.05.031>, Butler et al., (2018) <doi:10.1038/nbt.4096> and Satija et al., (2015) <doi:10.1038/nbt.3192>. Method for reduced rank reconstruction and rank-k selection is detailed in: Javaid et al., (2022) <doi:10.1101/2022.10.08.511197>. Gene set scoring procedure is described in: Frost et al., (2020) <doi:10.1093/nar/gkaa582>. Clustering method is outlined in: Song et al., (2020) <doi:10.1093/bioinformatics/btaa613> and Wang et al., (2011) <doi:10.32614/RJ-2011-015>.
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
Imports: Ckmeans.1d.dp, Matrix, Seurat, SPECK, stats, VAM
RoxygenNote: 7.2.3
Depends: R (>= 2.10)
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2023-11-17 20:31:39 UTC; azkajavaid
Author: H. Robert Frost [aut],
  Azka Javaid [aut, cre]
Repository: CRAN
Date/Publication: 2023-11-17 21:10:02 UTC
Built: R 4.4.3; ; 2026-02-13 06:08:57 UTC; windows
