code availability d experimental model (Akoya Biosciences)
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code availability d experimental model
Code Availability D Experimental Model, supplied by Akoya Biosciences, used in various techniques. Bioz Stars score: 99/100, based on 12625 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/code+availability+d+experimental+model/PhenoCycler-Fusion+2%2E0/pm38085642-210-32-87
Average 99 stars, based on 12625 article reviews
Code Availability D Experimental Model, supplied by Akoya Biosciences, used in various techniques. Bioz Stars score: 99/100, based on 12625 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/code+availability+d+experimental+model/PhenoCycler-Fusion+2%2E0/pm38085642-210-32-87
Average 99 stars, based on 12625 article reviews
code availability d experimental model - by Bioz Stars,
2026-09
99/100 stars
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Formalin-fixed Paraffin-Embedded:Article Title: Cellular architecture and neighborhood-informed virtual spatial tumor profiling from histopathology. Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Biological samples Formalin-fixed paraffin-embedded (FFPE) human lung tumor samples This Manuscript N/A Chemicals, peptides, and recombinant proteins CODEX barcode BX-023 (used for CD163 custom conjugation) Akoya Biosciences Cat# 5250003 CODEX barcode BX-052 (used for FAP custom conjugation) Akoya Biosciences Cat# 5250012 CODEX barcode BX-016 (used for CD138 custom conjugation) Akoya Biosciences Cat# 5150001 CODEX barcode BX-020 (used for CD66b custom conjugation) Akoya Biosciences Cat# 5250002 CODEX barcode BX-013 (used for αSMA custom conjugation) Akoya Biosciences Cat# 5450017 CODEX barcode BX-028 (used for MMP9 custom conjugation) Akoya Biosciences Cat# 5150005 Deposited data CODEX and H&E data This paper Zenodo: https://zenodo.org/records/ 20263843 Software and algorithms R 4.4.0 R Core Team https://www.r-project.org Python 3.10.14 Python Software Foundation https://www.python.org/downloads/ release/python-31014/ CODEX Instrument Manager Akoya Biosciences https://help.codex.bio/codex/cim/ CODEX Processor Akoya Biosciences https://help.codex.bio/codex/processor/ ImageJ v2.3.0 ImageJ https://imagej.net/ij/ QuPath v0.4.3 QuPath https://qupath.github.io/ Seurat 5.1.0 Satija Lab https://satijalab.org/seurat Harmony 1.2.1 CRAN https://cran.r-project.org/web/packages/ harmony/index.html mclust 6.1.1 CRAN https://cran.r-project.org/package=mclust ConsensusClusterPlus 1.68.0 Bioconductor https://bioconductor.org/packages/ release/bioc/html/ConsensusClusterPlus. html GSVA 1.52.3 Bioconductor https://www.bioconductor.org/packages/ release/bioc/html/GSVA.html survival 3.6-4 CRAN https://cran.r-project.org/ package=survival survminer 0.5.0 CRAN https://cran.r-project.org/ package=survminer randomForestSRC 3.3.2 CRAN https://cran.r-project.org/ package=randomForestSRC CANVAS pipeline and analysis scripts This paper GitHub: https://github.com/lilab-stanford/ CANVAS Other PhenoCycler Antibody Conjugation Kit Akoya Biosciences Cat# 7000009 Recombinant:Article Title: Cellular architecture and neighborhood-informed virtual spatial tumor profiling from histopathology. Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Biological samples Formalin-fixed paraffin-embedded (FFPE) human lung tumor samples This Manuscript N/A Chemicals, peptides, and recombinant proteins CODEX barcode BX-023 (used for CD163 custom conjugation) Akoya Biosciences Cat# 5250003 CODEX barcode BX-052 (used for FAP custom conjugation) Akoya Biosciences Cat# 5250012 CODEX barcode BX-016 (used for CD138 custom conjugation) Akoya Biosciences Cat# 5150001 CODEX barcode BX-020 (used for CD66b custom conjugation) Akoya Biosciences Cat# 5250002 CODEX barcode BX-013 (used for αSMA custom conjugation) Akoya Biosciences Cat# 5450017 CODEX barcode BX-028 (used for MMP9 custom conjugation) Akoya Biosciences Cat# 5150005 Deposited data CODEX and H&E data This paper Zenodo: https://zenodo.org/records/ 20263843 Software and algorithms R 4.4.0 R Core Team https://www.r-project.org Python 3.10.14 Python Software Foundation https://www.python.org/downloads/ release/python-31014/ CODEX Instrument Manager Akoya Biosciences https://help.codex.bio/codex/cim/ CODEX Processor Akoya Biosciences https://help.codex.bio/codex/processor/ ImageJ v2.3.0 ImageJ https://imagej.net/ij/ QuPath v0.4.3 QuPath https://qupath.github.io/ Seurat 5.1.0 Satija Lab https://satijalab.org/seurat Harmony 1.2.1 CRAN https://cran.r-project.org/web/packages/ harmony/index.html mclust 6.1.1 CRAN https://cran.r-project.org/package=mclust ConsensusClusterPlus 1.68.0 Bioconductor https://bioconductor.org/packages/ release/bioc/html/ConsensusClusterPlus. html GSVA 1.52.3 Bioconductor https://www.bioconductor.org/packages/ release/bioc/html/GSVA.html survival 3.6-4 CRAN https://cran.r-project.org/ package=survival survminer 0.5.0 CRAN https://cran.r-project.org/ package=survminer randomForestSRC 3.3.2 CRAN https://cran.r-project.org/ package=randomForestSRC CANVAS pipeline and analysis scripts This paper GitHub: https://github.com/lilab-stanford/ CANVAS Other PhenoCycler Antibody Conjugation Kit Akoya Biosciences Cat# 7000009 Conjugation Assay:Article Title: Cellular architecture and neighborhood-informed virtual spatial tumor profiling from histopathology. Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Biological samples Formalin-fixed paraffin-embedded (FFPE) human lung tumor samples This Manuscript N/A Chemicals, peptides, and recombinant proteins CODEX barcode BX-023 (used for CD163 custom conjugation) Akoya Biosciences Cat# 5250003 CODEX barcode BX-052 (used for FAP custom conjugation) Akoya Biosciences Cat# 5250012 CODEX barcode BX-016 (used for CD138 custom conjugation) Akoya Biosciences Cat# 5150001 CODEX barcode BX-020 (used for CD66b custom conjugation) Akoya Biosciences Cat# 5250002 CODEX barcode BX-013 (used for αSMA custom conjugation) Akoya Biosciences Cat# 5450017 CODEX barcode BX-028 (used for MMP9 custom conjugation) Akoya Biosciences Cat# 5150005 Deposited data CODEX and H&E data This paper Zenodo: https://zenodo.org/records/ 20263843 Software and algorithms R 4.4.0 R Core Team https://www.r-project.org Python 3.10.14 Python Software Foundation https://www.python.org/downloads/ release/python-31014/ CODEX Instrument Manager Akoya Biosciences https://help.codex.bio/codex/cim/ CODEX Processor Akoya Biosciences https://help.codex.bio/codex/processor/ ImageJ v2.3.0 ImageJ https://imagej.net/ij/ QuPath v0.4.3 QuPath https://qupath.github.io/ Seurat 5.1.0 Satija Lab https://satijalab.org/seurat Harmony 1.2.1 CRAN https://cran.r-project.org/web/packages/ harmony/index.html mclust 6.1.1 CRAN https://cran.r-project.org/package=mclust ConsensusClusterPlus 1.68.0 Bioconductor https://bioconductor.org/packages/ release/bioc/html/ConsensusClusterPlus. html GSVA 1.52.3 Bioconductor https://www.bioconductor.org/packages/ release/bioc/html/GSVA.html survival 3.6-4 CRAN https://cran.r-project.org/ package=survival survminer 0.5.0 CRAN https://cran.r-project.org/ package=survminer randomForestSRC 3.3.2 CRAN https://cran.r-project.org/ package=randomForestSRC CANVAS pipeline and analysis scripts This paper GitHub: https://github.com/lilab-stanford/ CANVAS Other PhenoCycler Antibody Conjugation Kit Akoya Biosciences Cat# 7000009 Software:Article Title: Cellular architecture and neighborhood-informed virtual spatial tumor profiling from histopathology. Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Biological samples Formalin-fixed paraffin-embedded (FFPE) human lung tumor samples This Manuscript N/A Chemicals, peptides, and recombinant proteins CODEX barcode BX-023 (used for CD163 custom conjugation) Akoya Biosciences Cat# 5250003 CODEX barcode BX-052 (used for FAP custom conjugation) Akoya Biosciences Cat# 5250012 CODEX barcode BX-016 (used for CD138 custom conjugation) Akoya Biosciences Cat# 5150001 CODEX barcode BX-020 (used for CD66b custom conjugation) Akoya Biosciences Cat# 5250002 CODEX barcode BX-013 (used for αSMA custom conjugation) Akoya Biosciences Cat# 5450017 CODEX barcode BX-028 (used for MMP9 custom conjugation) Akoya Biosciences Cat# 5150005 Deposited data CODEX and H&E data This paper Zenodo: https://zenodo.org/records/ 20263843 Software and algorithms R 4.4.0 R Core Team https://www.r-project.org Python 3.10.14 Python Software Foundation https://www.python.org/downloads/ release/python-31014/ CODEX Instrument Manager Akoya Biosciences https://help.codex.bio/codex/cim/ CODEX Processor Akoya Biosciences https://help.codex.bio/codex/processor/ ImageJ v2.3.0 ImageJ https://imagej.net/ij/ QuPath v0.4.3 QuPath https://qupath.github.io/ Seurat 5.1.0 Satija Lab https://satijalab.org/seurat Harmony 1.2.1 CRAN https://cran.r-project.org/web/packages/ harmony/index.html mclust 6.1.1 CRAN https://cran.r-project.org/package=mclust ConsensusClusterPlus 1.68.0 Bioconductor https://bioconductor.org/packages/ release/bioc/html/ConsensusClusterPlus. html GSVA 1.52.3 Bioconductor https://www.bioconductor.org/packages/ release/bioc/html/GSVA.html survival 3.6-4 CRAN https://cran.r-project.org/ package=survival survminer 0.5.0 CRAN https://cran.r-project.org/ package=survminer randomForestSRC 3.3.2 CRAN https://cran.r-project.org/ package=randomForestSRC CANVAS pipeline and analysis scripts This paper GitHub: https://github.com/lilab-stanford/ CANVAS Other PhenoCycler Antibody Conjugation Kit Akoya Biosciences Cat# 7000009 |