Showing : Output • reset
0
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2
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955
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Number of rows in DESeq2 output (.csv) is not the same as number of rows in the results(dds) dataframe
output difference
2.6 years ago Jamie • 0
0
votes
3
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2.2k
views
DECIPHER save alignement in outputs
msa decipher output prettyPrint
updated 4.4 years ago by ▴ 300 • written 4.4 years ago by • 0
3
votes
6
replies
1.9k
views
Interpreting the output of score test using GENESIS
genesis output score
updated 5.4 years ago by ▴ 890 • written 5.4 years ago by ▴ 10
0
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3
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1.6k
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MEDIPS - Annotation output explanation
MEDIPS Output
6.8 years ago vjain • 0
2
votes
8
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4.7k
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How to extract the voom normalized value for each observation?
voomWithQualityWeights output
updated 7.2 years ago by 52k • written 7.2 years ago by ▴ 60
1
vote
1
reply
2.0k
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limma: The topTable function implementation when outputin the differential expression results from RNA-seq dataset?
limma voom edgeR toptable output
updated 7.5 years ago by ★ 28k • written 7.5 years ago by ▴ 10
2
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9
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4.0k
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msa alignement: sorted sequences by sequence name
msa alignement output sorted
8.1 years ago Olorin ▴ 50
2
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2
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1.6k
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Cytofkit - Trouble with writing files after performing the analysis
cytofkit cytof write.csv output
updated 8.3 years ago by ▴ 30 • written 8.3 years ago by • 0
0
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5
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6.8k
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Adding information to the DESeq2 output file (gene name and expression levels for each sample(
deseq2 gene columns output
updated 9.3 years ago by 43k • written 9.3 years ago by ▴ 10
9 results • Page 1 of 1
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Answer: SingleR with multiple single cell references by Aaron Lun ★ 28k
> Is it necessary to piece together the individual steps manually (e.g. aggregateReference, trainSingleR, classifySingleR, combineRecompute…
Answer: Automatically install dependencies by ATpoint ★ 4.7k
The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…
Answer: To count or not to count multi-overlapping reads? by Gordon Smyth 52k
> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…
Comment: Weird p-values using DESeq2? by ATpoint ★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
Answer: Weird p-values using DESeq2? by Wolfgang Huber ★ 13k
Dear Ingrid, thank you for asking. Can you provide the input count matrix (you can "pseudonymize" the biological conditions and the gene n…
Votes
A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo
Comment: Weird p-values using DESeq2?
Comment: Overcoming confounding in batch effect correction
Answer: Store Matrix in DataFrame Cell
Answer: enrichGOgradient color change
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