Aggregated RNA-Seq Coverage Track Settings
 
Aggregated RNA-Seq Coverage   (All RNA-Seq Tracks)

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Data last updated at UCSC: 2024-12-30 19:50:09

Description

This track shows the aggregated RNA-Seq coverage for D. mauritiana. The RNA-Seq reads were mapped against the D. mauritiana (DmauRefSeq1) genome assembly using HISAT2. RNA-Seq read alignments from multiple replicates were combined together, and the read coverage was normalized by a wigsum of 100,000,000 (1 million 100bp reads). The read coverage tracks were produced by the bam2wig.py program in RSeQC. These RNA-Seq read coverage tracks were then combined using the bigWigMerge tool developed by the UCSC Genome Browser Project Team to create the aggregated RNA-Seq coverage track.

Accession Numbers for RNA-Seq Data

The RNA-Seq data were obtained from NCBI using the following accession numbers:

References

Chakraborty M, et al. Evolution of genome structure in the Drosophila simulans species complex. Genome Res. 2021 Mar;31(3):380-396.

Kim D, Langmead B, Salzberg SL. HISAT: a fast spliced aligner with low memory requirements. Nat Methods. 2015 Apr;12(4):357-60.

Wang L, Wang S, Li W. RSeQC: quality control of RNA-Seq experiments. Bioinformatics. 2012 Aug 15;28(16):2184-5.