Package: scINSIGHT 0.1.4

Kun Qian

scINSIGHT: Interpretation of Heterogeneous Single-Cell Gene Expression Data

We develop a novel matrix factorization tool named 'scINSIGHT' to jointly analyze multiple single-cell gene expression samples from biologically heterogeneous sources, such as different disease phases, treatment groups, or developmental stages. Given multiple gene expression samples from different biological conditions, 'scINSIGHT' simultaneously identifies common and condition-specific gene modules and quantify their expression levels in each sample in a lower-dimensional space. With the factorized results, the inferred expression levels and memberships of common gene modules can be used to cluster cells and detect cell identities, and the condition-specific gene modules can help compare functional differences in transcriptomes from distinct conditions. Please also see Qian K, Fu SW, Li HW, Li WV (2022) <doi:10.1186/s13059-022-02649-3>.

Authors:Kun Qian [aut, ctb, cre], Wei Vivian Li [aut, ctb]

scINSIGHT_0.1.4.tar.gz
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scINSIGHT_0.1.4.tgz(r-4.4-x86_64)scINSIGHT_0.1.4.tgz(r-4.4-arm64)scINSIGHT_0.1.4.tgz(r-4.3-x86_64)scINSIGHT_0.1.4.tgz(r-4.3-arm64)
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scINSIGHT.pdf |scINSIGHT.html
scINSIGHT/json (API)

# Install 'scINSIGHT' in R:
install.packages('scINSIGHT', repos = c('https://vivianstats.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/vivianstats/scinsight/issues

Uses libs:
  • openblas– Optimized BLAS
  • c++– GNU Standard C++ Library v3

On CRAN:

bioinformaticsgene-expressionintegrationscrna-seq

3.98 score 19 stars 10 scripts 169 downloads 2 exports 16 dependencies

Last updated 2 years agofrom:8f20e61b6a. Checks:OK: 1 WARNING: 8. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 08 2024
R-4.5-win-x86_64WARNINGOct 08 2024
R-4.5-linux-x86_64WARNINGOct 08 2024
R-4.4-win-x86_64WARNINGOct 08 2024
R-4.4-mac-x86_64WARNINGOct 08 2024
R-4.4-mac-aarch64WARNINGOct 08 2024
R-4.3-win-x86_64WARNINGOct 08 2024
R-4.3-mac-x86_64WARNINGOct 08 2024
R-4.3-mac-aarch64WARNINGOct 08 2024

Exports:create_scINSIGHTrun_scINSIGHT

Dependencies:clicpp11glueigraphlatticelifecyclemagrittrMatrixpkgconfigRANNRcppRcppArmadillorlangstringistringrvctrs