based implementation of the density matrix formalism Search Results


based implementation of the density matrix formalism  (MathWorks Inc)
90
MathWorks Inc based implementation of the density matrix formalism
Based Implementation Of The Density Matrix Formalism, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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based implementation of the density matrix formalism - by Bioz Stars, 2026-04
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density-based clustering (dbscan)  (MathWorks Inc)
90
MathWorks Inc density-based clustering (dbscan)
a, t-SNE 2D projection of the RNA expression data, clustered with <t>DBSCAN</t> (see ). Annotations identified by manual inspection are indicated by matching colours and numbers (labelled on the right). This number/colour legend is used for all panels. b, The relative embryonic spatial positions of cells in each group shown for three embryos. c, Distance maps from ORCA for each assigned group. d, Normalized distance maps (observed minus expected distance) for each group. The expected distance accounts for the polymer nature of DNA, whereby sequences closer in linear position along the genome are expected to be closer together in 3D space. The expected distance was calculated by fitting a power law to the distribution of 3D separation distances between barcodes as a function of their linear separation for all data in all cells.
Density Based Clustering (Dbscan), supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/density-based clustering (dbscan)/product/MathWorks Inc
Average 90 stars, based on 1 article reviews
density-based clustering (dbscan) - by Bioz Stars, 2026-04
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simulated annealing molecular dynamics  (Molecular Dynamics Inc)
90
Molecular Dynamics Inc simulated annealing molecular dynamics
a, t-SNE 2D projection of the RNA expression data, clustered with <t>DBSCAN</t> (see ). Annotations identified by manual inspection are indicated by matching colours and numbers (labelled on the right). This number/colour legend is used for all panels. b, The relative embryonic spatial positions of cells in each group shown for three embryos. c, Distance maps from ORCA for each assigned group. d, Normalized distance maps (observed minus expected distance) for each group. The expected distance accounts for the polymer nature of DNA, whereby sequences closer in linear position along the genome are expected to be closer together in 3D space. The expected distance was calculated by fitting a power law to the distribution of 3D separation distances between barcodes as a function of their linear separation for all data in all cells.
Simulated Annealing Molecular Dynamics, supplied by Molecular Dynamics Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Average 90 stars, based on 1 article reviews
simulated annealing molecular dynamics - by Bioz Stars, 2026-04
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density-based to  (MathWorks Inc)
90
MathWorks Inc density-based to
a, t-SNE 2D projection of the RNA expression data, clustered with <t>DBSCAN</t> (see ). Annotations identified by manual inspection are indicated by matching colours and numbers (labelled on the right). This number/colour legend is used for all panels. b, The relative embryonic spatial positions of cells in each group shown for three embryos. c, Distance maps from ORCA for each assigned group. d, Normalized distance maps (observed minus expected distance) for each group. The expected distance accounts for the polymer nature of DNA, whereby sequences closer in linear position along the genome are expected to be closer together in 3D space. The expected distance was calculated by fitting a power law to the distribution of 3D separation distances between barcodes as a function of their linear separation for all data in all cells.
Density Based To, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/density-based to/product/MathWorks Inc
Average 90 stars, based on 1 article reviews
density-based to - by Bioz Stars, 2026-04
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density based solver  (ANSYS inc)
90
ANSYS inc density based solver
a, t-SNE 2D projection of the RNA expression data, clustered with <t>DBSCAN</t> (see ). Annotations identified by manual inspection are indicated by matching colours and numbers (labelled on the right). This number/colour legend is used for all panels. b, The relative embryonic spatial positions of cells in each group shown for three embryos. c, Distance maps from ORCA for each assigned group. d, Normalized distance maps (observed minus expected distance) for each group. The expected distance accounts for the polymer nature of DNA, whereby sequences closer in linear position along the genome are expected to be closer together in 3D space. The expected distance was calculated by fitting a power law to the distribution of 3D separation distances between barcodes as a function of their linear separation for all data in all cells.
Density Based Solver, supplied by ANSYS inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/density based solver/product/ANSYS inc
Average 90 stars, based on 1 article reviews
density based solver - by Bioz Stars, 2026-04
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materials studio 7.0  (Accelrys)
90
Accelrys materials studio 7.0
a, t-SNE 2D projection of the RNA expression data, clustered with <t>DBSCAN</t> (see ). Annotations identified by manual inspection are indicated by matching colours and numbers (labelled on the right). This number/colour legend is used for all panels. b, The relative embryonic spatial positions of cells in each group shown for three embryos. c, Distance maps from ORCA for each assigned group. d, Normalized distance maps (observed minus expected distance) for each group. The expected distance accounts for the polymer nature of DNA, whereby sequences closer in linear position along the genome are expected to be closer together in 3D space. The expected distance was calculated by fitting a power law to the distribution of 3D separation distances between barcodes as a function of their linear separation for all data in all cells.
Materials Studio 7.0, supplied by Accelrys, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/materials studio 7.0/product/Accelrys
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materials studio 7.0 - by Bioz Stars, 2026-04
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verilog hdl-based log-mpa  (Altera Corp)
90
Altera Corp verilog hdl-based log-mpa
a, t-SNE 2D projection of the RNA expression data, clustered with <t>DBSCAN</t> (see ). Annotations identified by manual inspection are indicated by matching colours and numbers (labelled on the right). This number/colour legend is used for all panels. b, The relative embryonic spatial positions of cells in each group shown for three embryos. c, Distance maps from ORCA for each assigned group. d, Normalized distance maps (observed minus expected distance) for each group. The expected distance accounts for the polymer nature of DNA, whereby sequences closer in linear position along the genome are expected to be closer together in 3D space. The expected distance was calculated by fitting a power law to the distribution of 3D separation distances between barcodes as a function of their linear separation for all data in all cells.
Verilog Hdl Based Log Mpa, supplied by Altera Corp, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/verilog hdl-based log-mpa/product/Altera Corp
Average 90 stars, based on 1 article reviews
verilog hdl-based log-mpa - by Bioz Stars, 2026-04
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Image Search Results


a, t-SNE 2D projection of the RNA expression data, clustered with DBSCAN (see ). Annotations identified by manual inspection are indicated by matching colours and numbers (labelled on the right). This number/colour legend is used for all panels. b, The relative embryonic spatial positions of cells in each group shown for three embryos. c, Distance maps from ORCA for each assigned group. d, Normalized distance maps (observed minus expected distance) for each group. The expected distance accounts for the polymer nature of DNA, whereby sequences closer in linear position along the genome are expected to be closer together in 3D space. The expected distance was calculated by fitting a power law to the distribution of 3D separation distances between barcodes as a function of their linear separation for all data in all cells.

Journal: Nature

Article Title: Visualizing DNA folding and RNA in embryos at single-cell resolution

doi: 10.1038/s41586-019-1035-4

Figure Lengend Snippet: a, t-SNE 2D projection of the RNA expression data, clustered with DBSCAN (see ). Annotations identified by manual inspection are indicated by matching colours and numbers (labelled on the right). This number/colour legend is used for all panels. b, The relative embryonic spatial positions of cells in each group shown for three embryos. c, Distance maps from ORCA for each assigned group. d, Normalized distance maps (observed minus expected distance) for each group. The expected distance accounts for the polymer nature of DNA, whereby sequences closer in linear position along the genome are expected to be closer together in 3D space. The expected distance was calculated by fitting a power law to the distribution of 3D separation distances between barcodes as a function of their linear separation for all data in all cells.

Article Snippet: The resulting clusters were separated using density-based clustering (DBSCAN) (Matlab implementation, Yarpiz 2015).

Techniques: RNA Expression, Polymer