Skip to content

Commit

Permalink
Merge pull request #4509 from openjournals/joss.05664
Browse files Browse the repository at this point in the history
Merging automatically
  • Loading branch information
editorialbot authored Aug 25, 2023
2 parents dec0c12 + 41b1e29 commit 13b11bf
Show file tree
Hide file tree
Showing 4 changed files with 716 additions and 0 deletions.
238 changes: 238 additions & 0 deletions joss.05664/10.21105.joss.05664.crossref.xml
Original file line number Diff line number Diff line change
@@ -0,0 +1,238 @@
<?xml version="1.0" encoding="UTF-8"?>
<doi_batch xmlns="http://www.crossref.org/schema/5.3.1"
xmlns:ai="http://www.crossref.org/AccessIndicators.xsd"
xmlns:rel="http://www.crossref.org/relations.xsd"
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
version="5.3.1"
xsi:schemaLocation="http://www.crossref.org/schema/5.3.1 http://www.crossref.org/schemas/crossref5.3.1.xsd">
<head>
<doi_batch_id>20230825T030514-25c7c9390bb5eb927c063a5392d35eb54e671061</doi_batch_id>
<timestamp>20230825030514</timestamp>
<depositor>
<depositor_name>JOSS Admin</depositor_name>
<email_address>[email protected]</email_address>
</depositor>
<registrant>The Open Journal</registrant>
</head>
<body>
<journal>
<journal_metadata>
<full_title>Journal of Open Source Software</full_title>
<abbrev_title>JOSS</abbrev_title>
<issn media_type="electronic">2475-9066</issn>
<doi_data>
<doi>10.21105/joss</doi>
<resource>https://joss.theoj.org</resource>
</doi_data>
</journal_metadata>
<journal_issue>
<publication_date media_type="online">
<month>08</month>
<year>2023</year>
</publication_date>
<journal_volume>
<volume>8</volume>
</journal_volume>
<issue>88</issue>
</journal_issue>
<journal_article publication_type="full_text">
<titles>
<title>dcTensor: An R package for discrete matrix/tensor
decomposition</title>
</titles>
<contributors>
<person_name sequence="first" contributor_role="author">
<given_name>Koki</given_name>
<surname>Tsuyuzaki</surname>
<ORCID>https://orcid.org/0000-0003-3797-2148</ORCID>
</person_name>
</contributors>
<publication_date>
<month>08</month>
<day>25</day>
<year>2023</year>
</publication_date>
<pages>
<first_page>5664</first_page>
</pages>
<publisher_item>
<identifier id_type="doi">10.21105/joss.05664</identifier>
</publisher_item>
<ai:program name="AccessIndicators">
<ai:license_ref applies_to="vor">http://creativecommons.org/licenses/by/4.0/</ai:license_ref>
<ai:license_ref applies_to="am">http://creativecommons.org/licenses/by/4.0/</ai:license_ref>
<ai:license_ref applies_to="tdm">http://creativecommons.org/licenses/by/4.0/</ai:license_ref>
</ai:program>
<rel:program>
<rel:related_item>
<rel:description>Software archive</rel:description>
<rel:inter_work_relation relationship-type="references" identifier-type="doi">10.5281/zenodo.8275544</rel:inter_work_relation>
</rel:related_item>
<rel:related_item>
<rel:description>GitHub review issue</rel:description>
<rel:inter_work_relation relationship-type="hasReview" identifier-type="uri">https://github.com/openjournals/joss-reviews/issues/5664</rel:inter_work_relation>
</rel:related_item>
</rel:program>
<doi_data>
<doi>10.21105/joss.05664</doi>
<resource>https://joss.theoj.org/papers/10.21105/joss.05664</resource>
<collection property="text-mining">
<item>
<resource mime_type="application/pdf">https://joss.theoj.org/papers/10.21105/joss.05664.pdf</resource>
</item>
</collection>
</doi_data>
<citation_list>
<citation key="bmf">
<article_title>Binary matrix factorization with
applications</article_title>
<author>Zhang</author>
<journal_title>ICDM 2007</journal_title>
<doi>10.1109/icdm.2007.99</doi>
<cYear>2007</cYear>
<unstructured_citation>Zhang, Z., Li, T., Ding, C., &amp;
Zhang, X. (2007). Binary matrix factorization with applications. ICDM
2007, 391–400.
https://doi.org/10.1109/icdm.2007.99</unstructured_citation>
</citation>
<citation key="semi">
<article_title>Probabilistic non-negative matrix
factorization with binary components</article_title>
<author>Ma</author>
<journal_title>MDPI mathematics</journal_title>
<doi>10.3390/math9111189</doi>
<cYear>2021</cYear>
<unstructured_citation>Ma, X., Gao, J., Liu, X., Zhang, T.,
&amp; Tang, Y. (2021). Probabilistic non-negative matrix factorization
with binary components. MDPI Mathematics, 1189.
https://doi.org/10.3390/math9111189</unstructured_citation>
</citation>
<citation key="amari">
<volume_title>Nonnegative matrix and tensor
factorizations</volume_title>
<author>Cichocki</author>
<cYear>2009</cYear>
<unstructured_citation>Cichocki, A., Zdunek, R., Phan, A.
H., &amp; Amari, S. (2009). Nonnegative matrix and tensor
factorizations. Wiley.</unstructured_citation>
</citation>
<citation key="ntf">
<article_title>Non-negative tensor factorization using alpha
and beta divergence</article_title>
<author>Cichocki</author>
<journal_title>ICASSP ’07</journal_title>
<doi>10.1109/icassp.2007.367106</doi>
<cYear>2007</cYear>
<unstructured_citation>Cichocki, A., Zdunek, R., Choi, S.,
Plemmons, R., &amp; Amari, S. (2007). Non-negative tensor factorization
using alpha and beta divergence. ICASSP ’07, III-1393-III-1396.
https://doi.org/10.1109/icassp.2007.367106</unstructured_citation>
</citation>
<citation key="ntd">
<article_title>Nonnegative tucker
decomposition</article_title>
<author>Kim</author>
<journal_title>IEEE CVPR</journal_title>
<doi>10.1109/cvpr.2007.383405</doi>
<cYear>2007</cYear>
<unstructured_citation>Kim, Y.-D., &amp; Choi, S. (2007).
Nonnegative tucker decomposition. IEEE CVPR, 1–8.
https://doi.org/10.1109/cvpr.2007.383405</unstructured_citation>
</citation>
<citation key="nmf">
<article_title>Learning the parts of objects by non-negative
matrix factorization</article_title>
<author>Lee</author>
<journal_title>Nature</journal_title>
<volume>401</volume>
<doi>10.1038/44565</doi>
<cYear>1999</cYear>
<unstructured_citation>Lee, D., &amp; Seung, H. (1999).
Learning the parts of objects by non-negative matrix factorization.
Nature, 401, 788–791.
https://doi.org/10.1038/44565</unstructured_citation>
</citation>
<citation key="svd">
<article_title>Benchmarking principal component analysis for
large-scale single-cell RNA-sequencing</article_title>
<author>Tsuyuzaki</author>
<journal_title>BMC Genome Biology</journal_title>
<volume>21(1)</volume>
<doi>10.1186/s13059-019-1900-3</doi>
<cYear>2020</cYear>
<unstructured_citation>Tsuyuzaki, K., Sato, H., Sato, K.,
&amp; Nikaido, I. (2020). Benchmarking principal component analysis for
large-scale single-cell RNA-sequencing. BMC Genome Biology, 21(1), 9.
https://doi.org/10.1186/s13059-019-1900-3</unstructured_citation>
</citation>
<citation key="sinmf1">
<article_title>Extracting gene expression profiles common to
colon and pancreatic adenocarcinoma using simultaneous nonnegative
matrix factorization</article_title>
<author>Badea</author>
<journal_title>Pacific Symposium on
Biocomputing</journal_title>
<doi>10.1142/9789812776136_0027</doi>
<cYear>2008</cYear>
<unstructured_citation>Badea, L. (2008). Extracting gene
expression profiles common to colon and pancreatic adenocarcinoma using
simultaneous nonnegative matrix factorization. Pacific Symposium on
Biocomputing, 279–290.
https://doi.org/10.1142/9789812776136_0027</unstructured_citation>
</citation>
<citation key="sinmf2">
<article_title>Discovery of multi-dimensional modules by
integrative analysis of cancer genomic data</article_title>
<author>Zhang</author>
<journal_title>Nucleic Acids Research</journal_title>
<volume>40(19)</volume>
<doi>10.1093/nar/gks725</doi>
<cYear>2012</cYear>
<unstructured_citation>Zhang, C.-C., S. Liu, Li, W., Shen,
H., Laird, P. W., &amp; Zhou, X. J. (2012). Discovery of
multi-dimensional modules by integrative analysis of cancer genomic
data. Nucleic Acids Research, 40(19), 9379–9391.
https://doi.org/10.1093/nar/gks725</unstructured_citation>
</citation>
<citation key="sinmf3">
<article_title>Probabilistic latent tensor
factorization</article_title>
<author>Yilmaz</author>
<journal_title>IVA/ICA 2010</journal_title>
<doi>10.1007/978-3-642-15995-4_43</doi>
<cYear>2010</cYear>
<unstructured_citation>Yilmaz, Y. K. (2010). Probabilistic
latent tensor factorization. IVA/ICA 2010, 346–353.
https://doi.org/10.1007/978-3-642-15995-4_43</unstructured_citation>
</citation>
<citation key="jnmf">
<article_title>A non-negative matrix factorization method
for detecting modules in heterogeneous omics multi-modal
data</article_title>
<author>Yang</author>
<journal_title>Bioinformatics</journal_title>
<volume>32(1)</volume>
<doi>10.1093/bioinformatics/btv544</doi>
<cYear>2016</cYear>
<unstructured_citation>Yang, Z., &amp; Michailidis, G.
(2016). A non-negative matrix factorization method for detecting modules
in heterogeneous omics multi-modal data. Bioinformatics, 32(1), 1–8.
https://doi.org/10.1093/bioinformatics/btv544</unstructured_citation>
</citation>
<citation key="pls">
<article_title>Stochastic optimization for PCA and
PLS</article_title>
<author>Arora</author>
<journal_title>2012 50th Annual Allerton Conference on
Communication, Control, and Computing (Allerton)</journal_title>
<cYear>2012</cYear>
<unstructured_citation>Arora, R. (2012). Stochastic
optimization for PCA and PLS. 2012 50th Annual Allerton Conference on
Communication, Control, and Computing (Allerton),
861–868.</unstructured_citation>
</citation>
</citation_list>
</journal_article>
</journal>
</body>
</doi_batch>
Loading

0 comments on commit 13b11bf

Please sign in to comment.