--access option resulted in different heatmap

[227BaronChen]

GENOME=./GRCh38.p13.genome.fa
ACCESS=./access-5kb.hg38.bed

cnvkit.py batch ./alignment/*T.bam --normal ./alignment/*N.bam --fasta $GENOME --targets $BED --annotate $ANNOTATE
Using the .call.cns results output by the parameters above, I got the following heatmap.

cnvkit.py batch ./alignment/*T.bam --normal ./alignment/*N.bam --fasta $GENOME --targets $BED --annotate $ANNOTATE
Using the .call.cns results output by the parameters above, I got the following heatmap

Comparing the heatmaps with and without the --access option, we can find that the difference between the two is mainly concentrated in the log2CN of chrX/chrY. Without the --access option, the chrX/chrY region in the heatmap are almost all red. Is this normal? Which result should I use?

ps: The samples are all male, the -x male option has been added when drawing the heatmap.

Best regards,
Baron

[227BaronChen]

@brentp @chapmanb @etal @roryk Thanks.