Introduction | Installation | Loading packages and data | Part A. scReClassify (Demonstration with synthetic mislabels) | Dimension reduction | Synthetic noise (Demonstration purpose) | Use scReClassify to correct mislabeled cell types. | Benchmark evaluation | Part B. scReClassify (mislabeled cell type correction) | SessionInfo
Package: scReClassify 1.19.0
Taiyun Kim
scReClassify: scReClassify: post hoc cell type classification of single-cell RNA-seq data
A post hoc cell type classification tool to fine-tune cell type annotations generated by any cell type classification procedure with semi-supervised learning algorithm AdaSampling technique. The current version of scReClassify supports Support Vector Machine and Random Forest as a base classifier.
Authors:
scReClassify_1.19.0.tar.gz
scReClassify_1.19.0.zip(r-4.7)scReClassify_1.19.0.zip(r-4.6)scReClassify_1.19.0.zip(r-4.5)
scReClassify_1.19.0.tgz(r-4.6-any)scReClassify_1.19.0.tgz(r-4.5-any)
scReClassify_1.19.0.tar.gz(r-4.7-any)scReClassify_1.19.0.tar.gz(r-4.6-any)
scReClassify_1.19.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
scReClassify/json (API)
| # Install 'scReClassify' in R: |
| install.packages('scReClassify', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/sydneybiox/screclassify/issues
Datasets:
- gse87795_subset_sce - GSE827795 subset data
On BioConductor:scReClassify-1.19.0(bioc 3.24)scReClassify-1.18.0(bioc 3.23)
softwaretranscriptomicssinglecellclassificationsupportvectormachine
Last updated from:08344c472d. Checks:1 WARNING, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | WARNING | 181 | ||
| linux-devel-x86_64 | OK | 326 | ||
| source / vignettes | OK | 303 | ||
| linux-release-x86_64 | OK | 289 | ||
| macos-release-arm64 | OK | 231 | ||
| macos-oldrel-arm64 | OK | 179 | ||
| windows-devel | OK | 191 | ||
| windows-release | OK | 190 | ||
| windows-oldrel | OK | 194 | ||
| wasm-release | OK | 136 |
Exports:bAccuracymatPCsmultiAdaSampling
Dependencies:abindBiobaseBiocGenericsclassDelayedArraye1071genericsGenomicRangesIRangeslatticeMASSMatrixMatrixGenericsmatrixStatsproxyrandomForestS4ArraysS4VectorsSeqinfoSingleCellExperimentSparseArraySummarizedExperimentXVector
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| bAccuracy | bAccuracy |
| GSE827795 subset data | gse87795_subset_sce |
| matPCs function | matPCs |
| multi Adaptive Sampling function | multiAdaSampling |
| scReClassify: a package for post hoc cell type classification of single-cell RNA-sequencing data. | scReClassify |
