Showing : output • reset
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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
3.4 years ago Jamie • 0
0
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3
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2.5k
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DECIPHER save alignement in outputs
msa decipher output prettyPrint
updated 5.2 years ago by ▴ 300 • written 5.2 years ago by • 0
3
votes
6
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2.2k
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Interpreting the output of score test using GENESIS
genesis output score
updated 6.2 years ago by ▴ 890 • written 6.2 years ago by ▴ 10
0
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3
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1.8k
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MEDIPS - Annotation output explanation
MEDIPS Output
7.6 years ago vjain • 0
2
votes
8
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5.1k
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How to extract the voom normalized value for each observation?
voomWithQualityWeights output
updated 8.0 years ago by 53k • written 8.0 years ago by ▴ 60
1
vote
1
reply
2.3k
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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 8.3 years ago by ★ 29k • written 8.4 years ago by ▴ 10
2
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9
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4.6k
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msa alignement: sorted sequences by sequence name
msa alignement output sorted
8.9 years ago Olorin ▴ 50
2
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2
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1.8k
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Cytofkit - Trouble with writing files after performing the analysis
cytofkit cytof write.csv output
updated 9.1 years ago by ▴ 30 • written 9.1 years ago by • 0
0
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5
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7.3k
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Adding information to the DESeq2 output file (gene name and expression levels for each sample(
deseq2 gene columns output
updated 10.1 years ago by 43k • written 10.1 years ago by ▴ 10
9 results • Page 1 of 1
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Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Answer: PTM analysis in LIMPA by Gordon Smyth 53k
For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…
Answer: problem reading bam files into nucleR by James W. MacDonald 68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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