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  • Query regarding haplotypes e.g. chr6_dbb_hap3

    Hi,

    I've been doing some analysis of exons/introns based on the hg19 assembly and RefSeq annotation track from UCSC.

    A number of chromosomes represent haplotype alleles or unplaced contigs.

    If doing analysis of exons/introns ... (e.g. avg size of introns across chr6 / chr7 as an example) - should one exclude these?

    chr19
    chr19_gl000209_random
    chr1_gl000191_random

    ...
    chr4
    chr4_ctg9_hap1
    chr5
    chr6
    chr6_apd_hap1
    chr6_cox_hap2

    ...


    Thanks for any advice.

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