Dear all,
I am going to index the human genome (hg19). Besides the sequence file named chr??.fa.gz, there are unplaced-sequence (chr??_gl??????_random.fa.gz) and alternative-haplotype (chr??_?????_hap?.fa.gz) files. Should I index only the base files or all of them? What effect will it have on the alignment results?
Thanks
I am going to index the human genome (hg19). Besides the sequence file named chr??.fa.gz, there are unplaced-sequence (chr??_gl??????_random.fa.gz) and alternative-haplotype (chr??_?????_hap?.fa.gz) files. Should I index only the base files or all of them? What effect will it have on the alignment results?
Thanks
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