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Answer: homer not configured properly
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clairechung112
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A late reply, but I just solved exactly the same error upon a request in the team. Please see if it helps in case anyone meets the same err…
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Was the spike-in a commercial product, e.g., from Zymo? Can you provide more information about what cells or DNA was spiked into your samp…
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Imputation takes what? A day or two of compute time? Just re-do it.
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Thanks. Really appreciate your help with this. This site is such a great resource.
The methods aren't totally clear on how they're gettin…
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It is possible that these drugs may not have been directly used in TCGA. Authors could have looked for mutations known to be acted on by th…
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Are you thinking about a specific scenario? If so, can you provide more info? I think the basic answer is that, yes, your choice of group C…
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Bedtools [intersect][1] allows you to specify the fraction of overlap between two BED (or BAM) files using the F/f/r flags. You could split…
Comment: How to access TCGA samples that were treated with a specific drug?
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Sorry, I should have been more specific. By "that list" I mean what's populated in the Therapeutic Agents tab when no filters are applied. …
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Not sure if you wanting to do like this-
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> Not every read in your data is going to match a guide.
That is also true for sure. Let me clarify what I mean. For every read you should…
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If your GFA has paths in it that are P lines with names that don't include a sample name, contig name, and separators, then those are what …
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> if you look at a fastq file you should be able to tell for every read definitely, if it has a perfect match for a guide in it and what gu…
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Because `dba.analyze` is not meant to be run directly on a peaks file. Have you read the documentation?
In addition, a ChIP-seq experiment…
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