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Figures needed for paper #89
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Added supplementary figure to document for correlation matrices, left unnumbered for now. |
Do we want volcano plots for all of the comparisons (e.g. male vs. female, controls vs. exposed, female controls vs. female exposed, etc) of gene and transcript expression? |
@kubu4 no all analysis will be within sex - thus just need one plot per sex |
Volcano plots are here: https://github.com/sr320/ceabigr/blob/main/output/18-differential-gene-expression-ballgown/figures/ Per lab meeting today:
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Supplemental figure added to paper: https://github.com/sr320/ceabigr/blob/main/output/42-predominant-isoform/pred-isoform-change-meth-distribution.pdf Another supp figure option, but I opted for the one above since that visualizes change in methylation (which was in the model): https://github.com/sr320/ceabigr/blob/main/output/42-predominant-isoform/pred-isoform-meth-exp-xy.pdf |
Supplemental figure to be added to paper/supp directory: https://github.com/sr320/ceabigr/blob/main/output/75-max-transcript-enrichment/max-trans-change-meth-distribution.pdf Another supp figure option: https://github.com/sr320/ceabigr/blob/main/output/75-max-transcript-enrichment/max-trans-meth-exp-xy.pdf |
Added figures for alternative splicing to document and supplementary materials. Links to code and figure in respective comments in manuscript. Notebook post about analysis here: https://ahuffmyer.github.io/ASH_Putnam_Lab_Notebook/Analysis-of-Variance-Simultaneous-Component-Analyses-ASCA-for-CEABIGR-project/ |
@AHuffmyer color scheme for plots:
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