Files in MissionBio/tapestriR
Analysis of Data Generated by the Tapestri Platform
.github/.gitignore
.github/workflows/pkgdown.yaml
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/Assay_object.R
R/Multiomics_object.R
R/define_subclones.R
R/dna_reads_normalization.R
R/filter_variants.R
R/global.R
R/protein_normalization.R
R/reader.R
R/visualization.R
README.md
_pkgdown.yml
docs/404.html
docs/LICENSE-text.html
docs/articles/index.html
docs/articles/loading_data.html
docs/articles/loading_data_files/figure-html/unnamed-chunk-2-1.png
docs/articles/loading_data_files/figure-html/unnamed-chunk-2-2.png
docs/articles/loading_data_files/figure-html/unnamed-chunk-3-1.png
docs/articles/loading_data_files/figure-html/unnamed-chunk-4-1.png
docs/articles/loading_data_files/figure-html/unnamed-chunk-4-2.png
docs/articles/loading_data_files/figure-html/unnamed-chunk-6-1.png
docs/articles/multiomics_analysis.html
docs/articles/multiomics_analysis_files/figure-html/num_clusters-1.png
docs/articles/multiomics_analysis_files/figure-html/umap-1.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-1-1.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-1-2.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-10-1.png
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docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-15-1.png
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docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-2-1.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-2-2.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-3-1.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-4-1.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-5-1.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-6-1.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-7-1.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-8-1.png
docs/articles/multiomics_analysis_files/figure-html/unnamed-chunk-9-1.png
docs/articles/my-vignette.html
docs/articles/raji_k562_analysis.html
docs/articles/raji_k562_analysis_files/figure-html/unnamed-chunk-2-1.png
docs/articles/raji_k562_analysis_files/figure-html/unnamed-chunk-3-1.png
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/TapestriR.html
docs/reference/Tapestri_Assay-class.html
docs/reference/Tapestri_Multiomics-class.html
docs/reference/add_analysis_layer.html
docs/reference/add_assay.html
docs/reference/add_data_layer.html
docs/reference/clr_by_cell.html
docs/reference/clr_by_feature.html
docs/reference/compute_ploidy.html
docs/reference/create_assay.html
docs/reference/create_moo.html
docs/reference/define_subclones.html
docs/reference/filter_variants.html
docs/reference/index.html
docs/reference/log_colMeans.html
docs/reference/log_norm_by_cell.html
docs/reference/log_norm_by_feature.html
docs/reference/names.Tapestri_Multiomics.html
docs/reference/normalize_dna_reads.html
docs/reference/read_assay_h5.html
docs/reference/read_insights_export.html
docs/reference/read_loom.html
docs/reference/read_tap.html
docs/reference/recode_genotypes.html
docs/reference/subset_assay.html
docs/reference/tapestri_ploidy_plot.html
docs/reference/tapestri_scatterplot.html
docs/reference/tapestri_violinplot.html
docs/reference/umap_theme.html
docs/reference/validate_variant_annotations.html
index.md
inst/extdata/4_cell_line_mix_dna_protein.h5
inst/extdata/PE11.cells.loom
inst/extdata/insights_2.2_export/AF.csv
inst/extdata/insights_2.2_export/DP.csv
inst/extdata/insights_2.2_export/GQ.csv
inst/extdata/insights_2.2_export/NGT.csv
inst/extdata/insights_2.2_export/README.txt
inst/extdata/insights_2.2_export/Variants.csv
man/TapestriR.Rd
man/Tapestri_Assay-class.Rd
man/Tapestri_Multiomics-class.Rd
man/add_analysis_layer.Rd
man/add_assay.Rd
man/add_data_layer.Rd
man/clr_by_cell.Rd
man/clr_by_feature.Rd
man/compute_ploidy.Rd
man/create_assay.Rd
man/create_moo.Rd
man/define_subclones.Rd
man/filter_variants.Rd
man/log_colMeans.Rd
man/log_norm_by_cell.Rd
man/log_norm_by_feature.Rd
man/normalize_dna_reads.Rd
man/read_assay_h5.Rd
man/read_insights_export.Rd
man/read_loom.Rd
man/read_tap.Rd
man/recode_genotypes.Rd
man/subset_assay.Rd
man/tapestri_ploidy_plot.Rd
man/tapestri_scatterplot.Rd
man/tapestri_violinplot.Rd
man/umap_theme.Rd
man/validate_variant_annotations.Rd
vignettes/.gitignore
vignettes/loading_data.Rmd
vignettes/multiomics_analysis.Rmd
