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b/man/prep_limma.Rd |
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% Generated by roxygen2: do not edit by hand |
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% Please edit documentation in R/PrepLimma.R |
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\name{prep_limma} |
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\alias{prep_limma} |
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\title{Prepare limma-voom DEG data for plotting} |
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\usage{ |
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prep_limma(input_path, output_name = NULL) |
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} |
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\arguments{ |
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\item{input_path}{Path to the RDS file containing the limma-voom DEG data frame.} |
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\item{output_name}{Name for the processed data frame, also used as the RDS file name.} |
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} |
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\value{ |
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A data frame with processed limma-voom DEG data. |
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} |
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\description{ |
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This function reads a limma-voom DEG data frame from an RDS file, filters it using |
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\code{\link{deg_filter}} function, adjusts the logFC to absolute values, adds a pseudo-count to P.Value, |
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and transforms P.Value for plotting. The final data frame is returned and |
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optionally saved to a new RDS file. |
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} |
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\examples{ |
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limma_file <- system.file("extdata", |
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"DEG_limma_voom_test.rds", |
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package = "TransProR") |
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limma <- prep_limma(limma_file) |
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} |