Package: ccImpute
Type: Package
Title: ccImpute: an accurate and scalable consensus clustering based
        approach to impute dropout events in the single-cell RNA-seq
        data (https://doi.org/10.1186/s12859-022-04814-8)
Version: 1.8.0
Authors@R: c(
	person("Marcin", "Malec",
  	email = "mamalec@iu.edu",
  	role = c("cre", "aut"),
  	comment = c(ORCID = "0000-0002-2354-513X")),
  	person("Parichit", "Sharma",
  	email = "parishar@iu.edu",
  	role = c("aut"),
  	comment = c(ORCID = "0000-0003-0822-1089")),
  	person("Hasan", "Kurban",
  	email = "hasan.kurban@tamu.edu",
  	role = c("aut"),
  	comment = c(ORCID = "0000-0003-3142-2866")),
  	person("Mehmet", "Dalkilic",
  	email = "dalkilic@indiana.edu",
  	role = c("aut")))
Description: Dropout events make the lowly expressed genes indistinguishable 
	from true zero expression and different than the low expression present in 
	cells of the same type. This issue makes any subsequent downstream analysis 
	difficult. ccImpute is an imputation algorithm that uses cell similarity 
	established by consensus clustering to impute the most probable dropout 
	events in the scRNA-seq datasets. ccImpute demonstrated performance which
	exceeds the performance of existing imputation approaches while introducing
	the least amount of new noise as measured by clustering performance 
	characteristics on datasets with known cell identities.
License: GPL-3
Imports: Rcpp, sparseMatrixStats, stats, BiocParallel, irlba,
        SingleCellExperiment, Matrix, SummarizedExperiment
LinkingTo: Rcpp, RcppEigen
Encoding: UTF-8
BugReports: https://github.com/khazum/ccImpute/issues
URL: https://github.com/khazum/ccImpute/
RoxygenNote: 7.3.2
biocViews: SingleCell, Sequencing, PrincipalComponent,
        DimensionReduction, Clustering, RNASeq, Transcriptomics
biocType: Software
Suggests: knitr, rmarkdown, BiocStyle, sessioninfo, scRNAseq, scater,
        mclust, testthat (>= 3.0.0), splatter
VignetteBuilder: knitr
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/ccImpute
git_branch: RELEASE_3_20
git_last_commit: 2e68b5c
git_last_commit_date: 2024-10-29
Repository: Bioconductor 3.20
Date/Publication: 2024-10-29
NeedsCompilation: yes
Packaged: 2024-10-29 23:55:46 UTC; biocbuild
Author: Marcin Malec [cre, aut] (<https://orcid.org/0000-0002-2354-513X>),
  Parichit Sharma [aut] (<https://orcid.org/0000-0003-0822-1089>),
  Hasan Kurban [aut] (<https://orcid.org/0000-0003-3142-2866>),
  Mehmet Dalkilic [aut]
Maintainer: Marcin Malec <mamalec@iu.edu>
Built: R 4.4.2; x86_64-conda-linux-gnu; 2024-12-24 18:46:48 UTC; unix
