Pakket: r-bioc-densvis (1.16.0+dfsg-1 en anderen)

[ Bron: r-bioc-densvis  ]

Experimenteel pakket

Warning: This package is from the experimental distribution. That means it is likely unstable or buggy, and it may even cause data loss. Please be sure to consult the changelog and other possible documentation before using it.

density-preserving data visualization via non-linear dimensionality reduction

Implements the density-preserving modification to t-SNE and UMAP described by Narayan et al. (2020) <doi:10.1101/2020.05.12.077776>. The non-linear dimensionality reduction techniques t-SNE and UMAP enable users to summarise complex high-dimensional sequencing data such as single cell RNAseq using lower dimensional representations. These lower dimensional representations enable the visualisation of discrete transcriptional states, as well as continuous trajectory (for example, in early development). However, these methods focus on the local neighbourhood structure of the data. In some cases, this results in misleading visualisations, where the density of cells in the low-dimensional embedding does not represent the transcriptional heterogeneity of data in the original high-dimensional space. den-SNE and densMAP aim to enable more accurate visual interpretation of high-dimensional datasets by producing lower-dimensional embeddings that accurately represent the heterogeneity of the original high-dimensional space, enabling the identification of homogeneous and heterogeneous cell states. This accuracy is accomplished by including in the optimisation process a term which considers the local density of points in the original high-dimensional space. This can help to create visualisations that are more representative of heterogeneity in the original high-dimensional space.

Andere aan r-bioc-densvis gerelateerde pakketten

• dep: libc6 (>= 2.27) [riscv64]

  GNU C Bibliotheek: Gedeelde bibliotheken
  Ook een virtueel pakket geboden door: libc6-udeb

  dep: libc6 (>= 2.29) [niet alpha, riscv64]

• dep: libc6.1 (>= 2.29) [alpha]

  GNU C Bibliotheek: Gedeelde bibliotheken
  Ook een virtueel pakket geboden door: libc6.1-udeb

• dep: libgcc-s1 (>= 3.0) [niet alpha, riscv64, sparc64]

  GCC support bibliotheek

  dep: libgcc-s1 (>= 3.4) [alpha, riscv64, sparc64]

• dep: libgomp1 (>= 4.2.1)

  GCC OpenMP (GOMP) support library

• dep: libstdc++6 (>= 14)

  GNU Standard C++ Library v3

• dep: r-api-4.0

  Pakket niet beschikbaar

• dep: r-api-bioc-3.19 [alpha]

  Pakket niet beschikbaar

• dep: r-api-bioc-3.20 [niet alpha]

  virtueel pakket geboden door r-bioc-biocgenerics

• dep: r-bioc-basilisk [niet alpha]

  freezing Python dependencies inside Bioconductor packages

  dep: r-bioc-basilisk (>= 1.16.0) [alpha]

• dep: r-cran-assertthat

  GNU R easy pre and post assertions

• dep: r-cran-irlba

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• dep: r-cran-rcpp

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• dep: r-cran-reticulate

  R interface to Python modules, classes, and functions

• dep: r-cran-rtsne

  GNU R T-Distributed Stochastic Neighbor Embedding using a Barnes-Hut

• sug: r-bioc-biocstyle

  standard styles for vignettes and other Bioconductor documents

• sug: r-cran-ggplot2

  implementation of the Grammar of Graphics

• sug: r-cran-knitr

  GNU R package for dynamic report generation using Literate Programming

• sug: r-cran-rmarkdown

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• sug: r-cran-testthat

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• sug: r-cran-uwot

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r-bioc-densvis downloaden

Pakket downloaden voor alle beschikbare platforms

Platform	Versie	Pakketgrootte	Geïnstalleerde grootte	Bestanden
alpha (unofficial port)	1.14.0+dfsg-1~0exp1	79,5 kB	215,0 kB	[overzicht]
amd64	1.16.0+dfsg-1	82,6 kB	204,0 kB	[overzicht]
arm64	1.16.0+dfsg-1	77,0 kB	216,0 kB	[overzicht]
mips64el	1.16.0+dfsg-1	77,4 kB	224,0 kB	[overzicht]
ppc64 (unofficial port)	1.16.0+dfsg-1	86,8 kB	283,0 kB	[overzicht]
ppc64el	1.16.0+dfsg-1	85,9 kB	280,0 kB	[overzicht]
riscv64	1.16.0+dfsg-1	80,8 kB	184,0 kB	[overzicht]
s390x	1.16.0+dfsg-1	85,6 kB	220,0 kB	[overzicht]
sparc64 (unofficial port)	1.16.0+dfsg-1	74,8 kB	1.117,0 kB	[overzicht]