User: mohammadalkadi0
mohammadalkadi0 • 10
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- 9 months, 3 weeks ago
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- 2 years, 1 month ago
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Posts by mohammadalkadi0
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... You can Download UTR sequences from:
https://downloads.yeastgenome.org/sequence/S288C_reference/SGD_all_ORFs_5prime_UTRs.fsa
https://downloads.yeastgenome.org/sequence/S288C_reference/SGD_all_ORFs_3prime_UTRs.fsa ...
written 10 months ago by
mohammadalkadi0 • 10
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... Maybe you are using different assembly releases. make sure they are the same (for example ce11, ce10 ..etc) ...
written 10 months ago by
mohammadalkadi0 • 10
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... I think it will use all genes. This is the code from their GitHub:
if (return.only.var.genes & !conserve.memory) {
scale.data <- vst.out$y[top.features, ]
} else {
scale.data <- vst.out$y
} ...
written 10 months ago by
mohammadalkadi0 • 10
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... I don't think nanopore is suitable for SNPs and indels. Maybe this is the reason why you won't find tools! ...
written 23 months ago by
mohammadalkadi0 • 10
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Comment:
C: tophat aligns to wrong strand
... However, when I did reverse-complement to the fastq file, i got almost identical results. ...
written 2.1 years ago by
mohammadalkadi0 • 10
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Comment:
C: tophat aligns to wrong strand
... I have the same problem. The real problem is the overlapped and opposite-oriented genes. I think the results will change but for the better. ...
written 2.1 years ago by
mohammadalkadi0 • 10
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