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=== X Chromosome Variant Calling ===
=== X Chromosome Variant Calling ===
--xChr ''chromosome name'' Label for the 'X' chromosome in the GLF file
--xChr ''chromosomeName'' Label for the 'X' chromosome in the GLF file
--xStart ''sex chromosome start'' Start of the non-pseudo-autosomal portion of the X (2,709,521 bp in build 36)
--xStart ''sexChromosomeStart'' Start of the non-pseudo-autosomal portion of the X (2,709,521 bp in build 36)
--xStop ''sex chromosome end'' End of the non-pseudo-autosomal portion of the X (154,584,237 bp in build 36)
--xStop ''sexChromosomeEnd'' End of the non-pseudo-autosomal portion of the X (154,584,237 bp in build 36)
== Model for Variant Calling ==
== Model for Variant Calling ==
