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upadte readme
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README.md

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@@ -48,7 +48,7 @@ Quick Start
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library(msImpute)
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# Let xna be a numeric matrix of log-intensity with NAs
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# Let xna be a numeric matrix of (unormalised) log-intensity with NAs
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# Let "group" defines a single experimental condition (e.g. control, treatment etc).
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# Let "design" defines the experimental design (e.g. model.matrix(~0+group+batch)).
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@@ -89,6 +89,7 @@ xcomplete <- msImpute(xna, method="v2-mnar", design=design, relax_min_obs = TRUE
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News
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**22.03.2025**
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The following changes have been made to function calls:
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- The use of 'group' is now deprecated. msImpute now allows specifying a design matrix (which has to have zero intercept) to accommodate more complex missing value (MV) data generation processes such as LC batch.
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- The new version models log-intensity as a mixture of two normal distributions, one for the MAR and one for the MNAR component. The weights of the mixture (equivalent to `a` or `alpha` in the old API) are determined according to a Dirichlet distribution learned from mv patterns, so you no longer need to specify the weights of the two distributions manually.
@@ -100,7 +101,7 @@ The following dependencies were removed:
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- scran
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The following functions are deprecated:
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- `computeStructuralMetrics`
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- computeStructuralMetrics()
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Tutorials
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