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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Metagenomics has improved the way researchers study microorganisms across diverse environments. Historically, studying microorganisms relied on culturing them in the lab, a method that limits the investigation of many species since most are unculturable1. Metagenomics overcomes these issues by allowing the study of microorganisms regardless of their ability to be cultured or the environments they inhabit. Over time, the field has evolved, especially with the advent...09-23-2024, 06:35 AM -
During the COVID-19 pandemic, scientists observed that while some individuals experienced severe illness when infected with SARS-CoV-2, others were barely affected. These disparities left researchers and clinicians wondering what causes the wide variations in response to viral infections and what role genetics plays.
Jean-Laurent Casanova, M.D., Ph.D., Professor at Rockefeller University, is a leading expert in this crossover between genetics and infectious...09-09-2024, 10:59 AM
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