Simulated data used in "AIDE: annotation-assisted isoform discovery with high precision"

<p>This repository contains the eight simulated RNA-seq samples (sample1, sample2, ..., sample8 with coverages10x, 20x, ...,&nbsp;80x) simulated from the annotation file &quot;truth.gtf&quot; by R package polyester. The simulation procedure is described in the Methods section &quot;Simulation for comparing isoform reconstruction methods&quot;. For example, sample 1 has mapped and sorted&nbsp;reads in &quot;sample1.sorted.bam&quot;.</p> <p>When we generate the benchmarking results in the Results section &quot;AIDE outperforms state-of-the-art methods on simulated data&quot;,&nbsp;we supply each isoform identification/quantification method (AIDE, Cufflinks, StringTie, or SLIDE) with one&nbsp;synthetic annotation file (in &quot;aGTF.zip&quot;) and one bam file (e.g., sample1.sorted.bam).</p>