Last updated: 2023-01-17

Checks: 2 0

Knit directory: Multimodal-Plasmacell_manuscript/

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R Markdown file: up-to-date

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Repository version: 95e922e

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Ignored files:
    Ignored:    .Rhistory
    Ignored:    .Rproj.user/
    Ignored:    analysis/cellstate_sidetest.Rmd
    Ignored:    analysis/hallmarks2.Rmd
    Ignored:    analysis/supplements.Rmd
    Ignored:    data/Seq2Science/
    Ignored:    data/azimuth_PBMCs/
    Ignored:    data/azimuth_bonemarrow/
    Ignored:    data/citeseqcount_htseqcount.zip
    Ignored:    data/genelist.plots.diffmarkers.txt
    Ignored:    data/genelist.plots.diffmarkers2.txt
    Ignored:    data/raw/
    Ignored:    data/supplementary/
    Ignored:    output/MOFA_analysis_Donorgroup.hdf5
    Ignored:    output/MOFA_analysis_Donorgroup.rds
    Ignored:    output/MOFA_analysis_Donorgroup_clustered.rds
    Ignored:    output/MOFA_analysis_Donorgroup_noIg.hdf5
    Ignored:    output/MOFA_analysis_Donorgroup_noIg2.hdf5
    Ignored:    output/extra plots.docx
    Ignored:    output/paper_figures/
    Ignored:    output/seu.fix_norm.rds
    Ignored:    output/seu.fix_norm_cellstate.rds
    Ignored:    output/seu.fix_norm_plasmacells.rds
    Ignored:    output/seu.live_norm.rds
    Ignored:    output/seu.live_norm_cellstate.rds
    Ignored:    output/seu.live_norm_plasmacells.rds
    Ignored:    output/seu.live_norm_plasmacells_RNA.rds
    Ignored:    output/top-PROT-loadings_IgA.tsv
    Ignored:    output/top-PROT-loadings_IgG.tsv
    Ignored:    output/top-PROT-loadings_IgM.tsv
    Ignored:    output/top-gene-loadings_IgA.tsv
    Ignored:    output/top-gene-loadings_IgG.tsv
    Ignored:    output/top-gene-loadings_IgM.csv
    Ignored:    output/top-gene-loadings_IgM.tsv

Unstaged changes:
    Modified:   .gitignore
    Modified:   CITATION.bib

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File Version Author Date Message
Rmd 95e922e Jessie van Buggenum 2023-01-17 final docs
html b33343c jessievb 2021-12-04 Build site.
Rmd ba1ceb0 jessievb 2021-12-04 update citation
html 4680ae2 jessievb 2021-10-07 Build site.
html a5a4eeb jessievb 2021-10-07 Build site.
html 0d76cee jessievb 2021-10-07 Build site.
Rmd a3282f4 jessievb 2021-10-07 publish initital project files
Rmd 06f88ae jessievb 2021-10-05 Start workflowr project.

The content in this repository is available under the CC BY 4.0 license.

For proper attribution, please cite our publication containing description and analysis of all presented data and results.