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davidbenjamin committed Jun 3, 2016
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* read counts must be present in the targets file but the reverse need not be true.
*
* Output is a read counts file with the same targets (rows) and samples (columns) as the input, corrected for GC bias.
* Coverage is represented by doubles in {@link ReadCountCollection}.
*
* @author David Benjamin <[email protected]>
*/
@CommandLineProgramProperties(
oneLineSummary = "Correct for per-sample GC bias effects.",
summary = "Correct for per-sample GC bias effects.",
summary = "Correct coverage in a read counts files by estimating per-sample bias as a function of target GC" +
" content and dividing input coverage by these derived bias curves.",
programGroup = CopyNumberProgramGroup.class
)
public class CorrectGCBias extends CommandLineProgram {
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