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148
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Deseq2 Rlog transformation
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updated 4 weeks ago by ★ 4.1k • written 5 weeks ago by • 0
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199
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5 weeks ago Stevie Pederson • 0
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196
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DESeq2 gives an error and R crashes
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5 weeks ago Dennis • 0
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364
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5 weeks ago Roope • 0
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5 weeks ago Chris ▴ 10
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Granges regionCounts not returning the expected number of entries
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6 weeks ago Modoc Kesner ▴ 10
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1
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559
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CopywriteR output
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updated 6 weeks ago by • 0 • written 2.5 years ago by • 0
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2
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315
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Error in if (nrow(peaks) > 0) { : argument is of length zero Calls: CopywriteR ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous> Execution h…
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6 weeks ago fer_talavera • 0
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163
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Why output of GSEA is not the same but inversed, when you have the same but inversed input data?
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6 weeks ago andromeda • 0
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0
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flowDensity on a flowset
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6 weeks ago fredrikwallberg • 0
0
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106
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6 weeks ago Macsue • 0
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176
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No output from read.bismark with bismark cov.files
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updated 6 weeks ago by 65k • written 6 weeks ago by • 0
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7
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7 weeks ago • updated 6 weeks ago needNGS • 0
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5
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7 weeks ago feather-W • 0
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7 weeks ago Pierre Lindenbaum ▴ 10
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Help with identifying genes mapped to KEGG pathway using pathview
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updated 7 weeks ago by ★ 4.0k • written 8 weeks ago by • 0
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271
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updated 7 weeks ago by ▴ 160 • written 7 weeks ago by • 0
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7 weeks ago gshweta95 • 0
2
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233
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Only positive enrichment score in GSEA
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updated 7 weeks ago by ★ 4.0k • written 8 weeks ago by ▴ 10
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Can i retrieve domain information from PANTHER ID's using PANTHER.db ?
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8 weeks ago nromerov • 0
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3
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cBioPortalData loads empty z-score expression table
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updated 8 weeks ago by 700 • written 8 weeks ago by • 0
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4
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8 weeks ago samuel.channon • 0
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updated 8 weeks ago by ★ 4.1k • written 8 weeks ago by • 0
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8 weeks ago BID • 0
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1.1k
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How can I compute AIC for MAST hurdle model fitted in the whole dataset?
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Sample-specific methylation values using QSEA
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updated 9 weeks ago by • 0 • written 3 months ago by • 0
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Rsubread: buildindex() should support multiple reference files
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9 weeks ago red_bricks ▴ 50
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9 weeks ago Sam ▴ 10
401 results • Page 2 of 9
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Answer: Subsetting RNAseq data | voomaByGroup() by Gordon Smyth 50k
Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
Answer: Numerical differences in DESeq2 output depending on different design matrix cons by Michael Love 42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
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Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
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Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
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