Bug#1042368: marked as done (ITP: r-bioc-densvis -- GNU R Density-Preserving Data Visualization via Non-Linear Dimensionality Reduction)
Your message dated Sun, 06 Aug 2023 08:10:12 +0000
with message-id <E1qSYq4-0090Cm-BB@fasolo.debian.org>
and subject line Bug#1042368: fixed in r-bioc-densvis 1.10.2+dfsg-1
has caused the Debian Bug report #1042368,
regarding ITP: r-bioc-densvis -- GNU R Density-Preserving Data Visualization via Non-Linear Dimensionality Reduction
to be marked as done.
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If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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1042368: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1042368
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--- Begin Message ---
- To: Debian Bug Tracking System <submit@bugs.debian.org>
- Subject: ITP: r-bioc-densvis -- GNU R Density-Preserving Data Visualization via Non-Linear Dimensionality Reduction
- From: Andreas Tille <tille@debian.org>
- Date: Thu, 27 Jul 2023 07:10:11 +0200
- Message-id: <169043461121.1383220.1606126029416723525.reportbug@sputnik>
Package: wnpp
Severity: wishlist
Subject: ITP: r-bioc-densvis -- GNU R Density-Preserving Data Visualization via Non-Linear Dimensionality Reduction
Package: wnpp
Owner: Andreas Tille <tille@debian.org>
Severity: wishlist
* Package name : r-bioc-densvis
Version : 1.10.2
Upstream Author : Alan O'Callaghan,
* URL : https://bioconductor.org/packages/densvis/
* License : MIT
Programming Lang: GNU R
Description : GNU R 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.
Remark: This package is maintained by Debian R Packages Maintainers at
https://salsa.debian.org/r-pkg-team/r-bioc-densvis
--- End Message ---
--- Begin Message ---
Source: r-bioc-densvis
Source-Version: 1.10.2+dfsg-1
Done: Andreas Tille <tille@debian.org>
We believe that the bug you reported is fixed in the latest version of
r-bioc-densvis, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to 1042368@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <tille@debian.org> (supplier of updated r-bioc-densvis package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmaster@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Thu, 27 Jul 2023 09:26:58 +0200
Source: r-bioc-densvis
Binary: r-bioc-densvis r-bioc-densvis-dbgsym
Architecture: source amd64
Version: 1.10.2+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Changed-By: Andreas Tille <tille@debian.org>
Description:
r-bioc-densvis - density-preserving data visualization via non-linear dimensionali
Closes: 1042368
Changes:
r-bioc-densvis (1.10.2+dfsg-1) unstable; urgency=medium
.
* Initial release (closes: #1042368)
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