Dear all,
How much Ns in a read should be allowed before discarding it? I have read a few studies removing reads with >1 N; but most studies on RNA-seq do not mention about this parameter. Is this too stringent for de novo assembly and differential expression studies using Illumina Hiseq 100 PE? All suggestions will be very much appreciated. Thank you!
How much Ns in a read should be allowed before discarding it? I have read a few studies removing reads with >1 N; but most studies on RNA-seq do not mention about this parameter. Is this too stringent for de novo assembly and differential expression studies using Illumina Hiseq 100 PE? All suggestions will be very much appreciated. Thank you!
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