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Best way to query VCF for specific variants
Comment: featureCounts output summary assigned value higher than uniquely mapped reads fr
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Comment: featureCounts output summary assigned value higher than uniquely mapped reads fr
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GenoMax
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You always need to add the following option when you are using `-p` to count paired-end reads. --countReadPairs If specified, fragm…
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mropri
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Hi swbarnes2, that was the problem, they were not numeric but as character columns. converted them and it fixed the error. Thank you for yo…
Answer: featureCounts output summary assigned value higher than uniquely mapped reads fr
by
Prawesh
• 0
I figured out: Since featureCounts counts fragments and not reads, we have pair-end data that means **Assigned** value from the output w…
Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
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kalavattam
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> My question is this: "mate reverse strand" (flag 16/0x10) or "read reverse strand" (flag 32/0x20) do not directly relate to the strandedn…
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As you stated, your problem is likely division by 0. See this [Cross-Validated][1] post that seems to be very similar to your problem. In …
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Consider using SLURM job arrays if you want to use a `for` loop inside a single SLURM job: https://hpc.nmsu.edu/discovery/slurm/job-arrays/
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the sequence c_000007023807_aloha2_low_cov is duplicated in the reference grep c_000007023807_aloha2_low_cov path/to/reference.fasta
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analyst
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Thank you so much dthorbur. Yes I am new to imputation analysis. I will follow your kind suggestions. Thanks again!
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lagartija
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I don't know but another way of doing it would be to combine different datasets of different strains that you know are clonal. Then you kno…
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Please check out these posts https://www.biostars.org/p/367626/
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trkfs
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will do, thank you
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You can do the following- Idents(SeuratObj) <- "orig.ident" control_set <- subset(SeuratObj, idents = c("counts.control","data.…
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Comment: 44% Successfully Assigned Fragments with featureCounts after 85% uniquely mapped
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Thind amarinder
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Wondering, if it was total RNAseq data? or ployA
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