User: sandersonrbt

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sandersonrbt40
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Posts by sandersonrbt

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Comment: C: What are the best set of options to use while aligning using STAR?
... I believe the option you would want there is --outReadsUnmapped Fastx. This will make a separate file of all the unmapped reads, albeit in fasta/fastq format (which you could potentially check for fusions using different tools/parameters). I am not sure how useful a BAM file of unaligned reads would ...
written 4 weeks ago by sandersonrbt40
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Answer: A: What are the best set of options to use while aligning using STAR?
... In general, I use and recommend others use STAR with the default settings unless there is a specific reason to change them. In my experience many options are great for fine-tuning your analysis to suit the particulars of your sequencing runs (trying to account for low depth/short-reads/etc) but I ra ...
written 5 weeks ago by sandersonrbt40

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Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: What are the best set of options to use while aligning using STAR?

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