A method for analyzing RNA sequencing data genome-wide using a pantranscriptome, a pangenome and transcriptome combined reference that contains genetic material from a cohort of diverse individuals. NBThighlight
. The VG MPMAP single-path alignments were created by finding the best scoring path in each multipath alignment.Recall and precision of whether a transcript is correctly assigned nonzero expression for different expression value thresholds ” pantranscriptome) using simulated data. Expression is measured in transcripts per million .Mean absolute relative expression difference between simulated and estimated expression for different pantranscriptomes using simulated data.
was calculated using either all HSTs in the pantranscriptome or using only the NA12878 HSTs .Number of expressed transcripts from NA12878 haplotypes shown against the number from non-NA12878 haplotypes for different expression value thresholds using real data.Fraction of transcript expression assigned to NA12878 haplotypes for different pantranscriptomes using simulated and real data.A set of examples showing allele concordance across tissues using two different variant expression thresholds.
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