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How can I translate NM_xxx.y:c.xxG>C mRNA sequences to corresponding NC_xxx.y:g.xxxC>G chromosomal coordinates?
refseq
Bioconductor
conversion
17 months ago
heiko_kin
▴ 50
1
vote
7
replies
467
views
BioMart webservices broken?
software error
ensemblID
conversion
updated 2.9 years ago by
James W. MacDonald
59k • written 2.9 years ago by
mlee
• 0
2
votes
1
reply
897
views
Convert Flowframe to matrix
flowcore
fcs
flow cytommetry
matrix
conversion
updated 2.9 years ago by
Jake Wagner
▴ 280 • written 2.9 years ago by
apurva
• 0
3
votes
6
replies
1.2k
views
biomaRt: Ensembl -> Entrez conversion error?
biomart
entrez gene identifiers
ensembl
conversion
updated 3.5 years ago by
Mike Smith
★ 5.5k • written 3.5 years ago by
EdgeR_A_Poe
▴ 10
3
votes
3
replies
1.2k
views
Does AnnotationHub replaces AnnotationDbi for ID conversion (e.g. entrez, refseq, symbols)?
conversion
symbol
entrez
updated 6.7 years ago by
James W. MacDonald
59k • written 6.7 years ago by
dalloliogm
▴ 40
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Comment: Transcript-level differential expression using DESeq2
by
Ekta
• 0
Ok.. thanks for your valuable suggestion and quick replies. I have generated an MA plot using plotMASwish. thanks ekta
Comment: Warnings when using "ashr" in lfcshrinkage for DESeq2
by
Michael Love
37k
Sorry, I haven't seen this. Maybe try filtering low count genes? ``` keep <- rowSums(counts(dds) >= 10) >= X dds <- dds[keep,] # then run …
Comment: Transcript-level differential expression using DESeq2
by
Michael Love
37k
To show some extent of the DTE you can plot the LFC of the significant set and their mean count, we have `plotMASwish` to do this. Another…
Comment: Transcript-level differential expression using DESeq2
by
Ekta
• 0
No, the Volcano plot is not essential. I just wanted to show DETs with the help of a plot. Could you suggest a way for it? What are the oth…
Comment: Warnings when using "ashr" in lfcshrinkage for DESeq2
by
andrebolerbarros
▴ 10
Hi Michael, I'm using the "contrast" parameter, so I cannot use apeglm with that, as far as I know. The "coef" will not allow me to do eve…
Votes
Comment: Transcript-level differential expression using DESeq2
Comment: Transcript-level differential expression using DESeq2
Answer: how to make a group to apply the data to CAMERA
Answer: how to make a group to apply the data to CAMERA
Comment: Using vegan::betadisper for determing if I subset my design for DESeq2
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