remove extra stuff

hds-sandbox · Mar 6, 2024 · 8865eeb · 8865eeb
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diff --git a/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.aux b/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.aux
diff --git a/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.html b/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.html
diff --git a/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.log b/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.log
diff --git a/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.out.ipynb b/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.out.ipynb
diff --git a/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.tex b/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.tex
diff --git a/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.toc b/Modules/Infected_Plant_Gene_Analysis/Notebook/notebook.toc
diff --git a/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/cell-134-output-3.png b/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/cell-134-output-3.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/cell-42-output-1.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/cell-42-output-1.png
diff --git a/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-corr-output-2.png b/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-corr-output-2.png
diff --git a/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-corr-output-3.png b/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-corr-output-3.png
diff --git a/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-corr-output-4.png b/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-corr-output-4.png
diff --git a/...Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-dendro-output-1.png b/...Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-dendro-output-1.png
diff --git a/...ant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-doublets-output-1.png b/...ant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-doublets-output-1.png
diff --git a/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-elbow-output-1.png b/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-elbow-output-1.png
diff --git a/...ant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-elbowint-output-1.png b/...ant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-elbowint-output-1.png
diff --git a/..._Analysis/Notebook/notebook_files/figure-html/fig-filtrelationship-output-2.png b/..._Analysis/Notebook/notebook_files/figure-html/fig-filtrelationship-output-2.png
diff --git a/...t_Gene_Analysis/Notebook/notebook_files/figure-html/fig-genecounts-output-2.png b/...t_Gene_Analysis/Notebook/notebook_files/figure-html/fig-genecounts-output-2.png
diff --git a/...Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-gentra-output-2.png b/...Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-gentra-output-2.png
diff --git a/...ant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-gentrach-output-2.png b/...ant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-gentrach-output-2.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-hvg-output-2.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-hvg-output-2.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-kme-output-1.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-kme-output-1.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-lol-output-3.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-lol-output-3.png
diff --git a/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-lol2-output-2.png b/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-lol2-output-2.png
diff --git a/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-mt-output-2.png b/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-mt-output-2.png
diff --git a/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-rinrk-output-1.png b/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-rinrk-output-1.png
diff --git a/...ant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-rnacount-output-2.png b/...ant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-rnacount-output-2.png
diff --git a/...Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-scores-output-1.png b/...Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-scores-output-1.png
diff --git a/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-sweep-output-3.png b/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-sweep-output-3.png
diff --git a/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-umap-output-1.png b/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-umap-output-1.png
diff --git a/...nt_Gene_Analysis/Notebook/notebook_files/figure-html/fig-umapbyeye-output-1.png b/...nt_Gene_Analysis/Notebook/notebook_files/figure-html/fig-umapbyeye-output-1.png
diff --git a/...lant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-umapint-output-1.png b/...lant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-umapint-output-1.png
diff --git a/...t_Gene_Analysis/Notebook/notebook_files/figure-html/fig-umapleiden-output-1.png b/...t_Gene_Analysis/Notebook/notebook_files/figure-html/fig-umapleiden-output-1.png
diff --git a/...ne_Analysis/Notebook/notebook_files/figure-html/fig-umapsubcluster-output-1.png b/...ne_Analysis/Notebook/notebook_files/figure-html/fig-umapsubcluster-output-1.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-vln-output-1.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-html/fig-vln-output-1.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/cell-134-output-3.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/cell-134-output-3.png
diff --git a/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/cell-42-output-1.png b/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/cell-42-output-1.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-corr-output-2.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-corr-output-2.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-corr-output-3.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-corr-output-3.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-corr-output-4.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-corr-output-4.png
diff --git a/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-dendro-output-1.png b/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-dendro-output-1.png
diff --git a/...lant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-doublets-output-1.png b/...lant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-doublets-output-1.png
diff --git a/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-elbow-output-1.png b/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-elbow-output-1.png
diff --git a/...lant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-elbowint-output-1.png b/...lant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-elbowint-output-1.png
diff --git a/...e_Analysis/Notebook/notebook_files/figure-pdf/fig-filtrelationship-output-2.png b/...e_Analysis/Notebook/notebook_files/figure-pdf/fig-filtrelationship-output-2.png
diff --git a/...nt_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-genecounts-output-2.png b/...nt_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-genecounts-output-2.png
diff --git a/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-gentra-output-2.png b/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-gentra-output-2.png
diff --git a/...lant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-gentrach-output-2.png b/...lant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-gentrach-output-2.png
diff --git a/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-hvg-output-2.png b/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-hvg-output-2.png
diff --git a/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-kme-output-1.png b/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-kme-output-1.png
diff --git a/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-lol-output-3.png b/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-lol-output-3.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-lol2-output-2.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-lol2-output-2.png
diff --git a/...cted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-mt-output-2.png b/...cted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-mt-output-2.png
diff --git a/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-rinrk-output-1.png b/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-rinrk-output-1.png
diff --git a/...lant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-rnacount-output-2.png b/...lant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-rnacount-output-2.png
diff --git a/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-scores-output-1.png b/..._Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-scores-output-1.png
diff --git a/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-sweep-output-3.png b/...d_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-sweep-output-3.png
diff --git a/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-umap-output-1.png b/...ed_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-umap-output-1.png
diff --git a/...ant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-umapbyeye-output-1.png b/...ant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-umapbyeye-output-1.png
diff --git a/...Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-umapint-output-1.png b/...Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-umapint-output-1.png
diff --git a/...nt_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-umapleiden-output-1.png b/...nt_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-umapleiden-output-1.png
diff --git a/...ene_Analysis/Notebook/notebook_files/figure-pdf/fig-umapsubcluster-output-1.png b/...ene_Analysis/Notebook/notebook_files/figure-pdf/fig-umapsubcluster-output-1.png
diff --git a/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-vln-output-1.png b/...ted_Plant_Gene_Analysis/Notebook/notebook_files/figure-pdf/fig-vln-output-1.png