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Comment: What are the best tools for quantifying allele-specific expression from bulk RNA
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LauferVA
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- Do you have DNA sequencing on same samples or should I assume you just have bulk RNA seq only
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An N50 of 1116 is not great, but not terrible.
Older binners like MaxBin and MetaBAT perform best with contigs having a minimum length of…
Comment: Shotgun dataset with polyG, low qualiity
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Thank you so much, I will try them :)
We had:
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Very true. Many high-impact scRNA studies conclude little but are presented beautifully. Everybody likes a pretty picture.
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As explained [here](http://doi.org/10.1093/bioinformatics/btae038) I would strongly advise to avoid UCSC liftover to change reference for s…
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Agreed. Before I *fully* understand what I'm doing, I'm more inclined to trust the default parameters as I know I could always indiscrimina…
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Most software programs are coded with default parameters that *should* work for majority of datasets (people sometimes forget that every pa…
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Here is the output of Picard's `CollectInsertSizeMetrics`, from what I gathered, this seems to be okay:
MEDIAN_INSERT_SIZE MODE_INSE…
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That's fair, but I just don't want to miss some alignments due to something simple that I perhaps should have spotted or done at some point…
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> I previously had no issues basecalling and subsequently processing long read data
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Quick question:
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