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Inconsistent Warning: GRanges out of bounds
cn.mops
granges
trim
Genomicranges-method
7.2 years ago
znl207
• 0
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1.4k
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filter and trim large fasta/bam files
deep sequencing
fasta
bam
trim
7.5 years ago
achaillon
• 0
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Comment: Differing results with DESeq2
by
JKim
• 0
I think it would be more straightforward if you use cellmeans model. Have a look at [A guide to creating design matrices for gene expressio…
Answer: CluserProfiler message "No gene can be mapped"
by
James W. MacDonald
68k
Your gene IDs are things like this: `Mpyr-NLJ1B.v3.hap1.scaffold1.g290550`, and the genes in your term2gene table are things like this: `Mp…
Answer: RNA-seq input to GRaNIE
by
James W. MacDonald
68k
This is [covered in the vignette.][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/GRaNIE/inst/doc/GRaNIE_packageDe…
Answer: Help using reduceSimMatrix with a custom annotation
by
sergisayolspuig
▴ 80
Hi there, `reduceSimMatrix()` expects a "GOALL" keytype in the OrgDb object when called with `children=TRUE` (which is the default for thi…
Answer: Analyzing TnSeq data with DESeq2
by
cold.wolverine.arku
• 0
That's a great use case of DESeq2! Even though it's not specifically tailored for TnSeq data, your approach to normalize and run explorator…
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Answer: ROAST for small sets
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