Hi, have you tried ngs.plot? It is a very powerful and flexible tool to plot NGS samples. In addition to a global plot for the entire genome, you can create any combination of bam files and gene lists. You can plot RNA-seq or ChIP-seq which are implemented as two different modes.
As for your question, click this example .
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Nice, thanks!
I was also interested in some easy way to get what the geneBody_coverage.py module is plotting.Leave a comment:
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Assessing RNA degradation in RNA-Seq
I've seen 3'-5' coverage plots used to diagnose RNA degradation for RNA-Seq experiments. Before I begin writing my own I was just wondering if anyone knows of an existing script that can produce them (from a BAM and a GTF for instance)?
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The COVID-19 pandemic highlighted the need for proactive pathogen surveillance systems. As ongoing threats like avian influenza and newly emerging infections continue to pose risks, researchers are working to improve how quickly and accurately pathogens can be identified and tracked. In a recent SEQanswers webinar, two experts discussed how next-generation sequencing (NGS) and machine learning are shaping efforts to monitor viral variation and trace the origins of infectious...03-24-2025, 11:48 AM -
This year’s Advances in Genome Biology and Technology (AGBT) General Meeting commemorated the 25th anniversary of the event at its original venue on Marco Island, Florida. While this year’s event didn’t include high-profile musical performances, the industry announcements and cutting-edge research still drew the attention of leading scientists.
The Headliner
The biggest announcement was Roche stepping back into the sequencing platform market. In the years since...03-03-2025, 01:39 PM
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