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@@ -168,6 +168,7 @@ setMethod("decontX", "SingleCellExperiment", function(x,
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168
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168
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countsBackground <- NULL
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169
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169
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if (!is.null(background)) {
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170
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170
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# Remove cells with the same ID between x and the background matrix
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171
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+ # Also update bgBatch when background is updated and bgBatch is not null
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171
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172
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temp <- .checkBackground(x = x,
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173
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background = background,
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173
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174
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bgBatch = bgBatch,
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@@ -258,6 +259,7 @@ setMethod("decontX", "ANY", function(x,
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258
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259
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countsBackground <- NULL
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259
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260
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if (!is.null(background)) {
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260
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261
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# Remove cells with the same ID between x and the background matrix
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262
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+ # Also update bgBatch when background is updated and bgBatch is not null
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261
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263
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temp <- .checkBackground(x = x,
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262
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264
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background = background,
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263
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265
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bgBatch = bgBatch,
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