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@@ -6192,7 +6192,7 @@ status collapsed
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\begin_inset Graphics
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filename graphics/CD4-csaw/MOFA-varExplained-matrix-CROP.png
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lyxscale 25
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- width 45col%
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+ height 70theight%
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groupId mofa-subfig
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\end_inset
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@@ -6251,7 +6251,7 @@ status collapsed
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\begin_inset Graphics
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filename graphics/CD4-csaw/MOFA-LF-scatter-small.png
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lyxscale 25
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- width 45col%
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+ height 70theight%
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groupId mofa-subfig
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\end_inset
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@@ -6288,19 +6288,6 @@ Scatter plots of specific pairs of MOFA latent factors.
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\end_inset
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-\end_layout
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-
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-\begin_layout Plain Layout
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-\begin_inset Flex TODO Note (inline)
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-status open
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-
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-\begin_layout Plain Layout
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-Figure font a bit too small
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-\end_layout
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-
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-\end_inset
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-
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-
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\end_layout
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\begin_layout Plain Layout
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@@ -6479,6 +6466,21 @@ noprefix "false"
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\end_inset
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).
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+ The batch effect has both a systematic component and a random noise component.
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+ While the systematic component was subtracted out using ComBat (Figure
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+
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+\begin_inset CommandInset ref
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+LatexCommand ref
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+reference "fig:RNA-PCA"
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+plural "false"
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+caps "false"
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+noprefix "false"
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+
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+\end_inset
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+
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+), no such correction is possible for the noise component: Batch 1 simply
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+ has substantially more random noise in it, which reduces the statistical
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+ power for any differential expression tests involving samples in that batch.
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\begin_inset Float table
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wide false
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@@ -6907,21 +6909,6 @@ If float lost issues, reposition randomly until success.
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\end_inset
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- The batch effect has both a systematic component and a random noise component.
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- While the systematic component was subtracted out using ComBat (Figure
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-
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-\begin_inset CommandInset ref
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-LatexCommand ref
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-reference "fig:RNA-PCA"
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-plural "false"
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-caps "false"
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-noprefix "false"
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-
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-\end_inset
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-
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-), no such correction is possible for the noise component: Batch 1 simply
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- has substantially more random noise in it, which reduces the statistical
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- power for any differential expression tests involving samples in that batch.
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\end_layout
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