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Old 12-08-2019, 05:34 PM   #1
piemmea
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Location: Italy

Join Date: Mar 2013
Posts: 6
Default how to treat read-through in mapping for differential expression analysis

hi all
I got 2x150 reads that I used to perform denovo assembly using Trinity, with Trimmomatic option on. Problem is, that nearly 35-40% of reads of all 6 libraries resulted with read-through (Trimmomatic retained forward read only). For assembly that was not a problem, but now I am unsure how to use such libraries to perform differential expression analysis to look for DEGs.
Very thankful to anyone who can give me suggestions
Marco
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differential analysis, read-through, rnaseq analysis, trimmomatic

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