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I don't think it's a big problem any way. If your sequenced species had several WGD, you do expect large number of repeats in the genome. BTW, have you looked at the latest version of GAP5? It sounds quite promissing.
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In short : You can't.
We had Newbler throwing away 50% of the reads, so we had a look at CABOG, which in our case looks to be the better choice.
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Newbler --- classify many reads as Repeat
Hello,
Newbler classified many reads as Repeat and throws them away from the assembly. In my analysis 24% reads are Repeats.
Does anyone know how to switch off this function?
Thank you vey much.Tags: None
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The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
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Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...-
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