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290
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5 weeks ago Stevie Pederson • 0
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DESeq2 gives an error and R crashes
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5 weeks ago Dennis • 0
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compareCluster dotplot: how to modify the genesets order
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updated 5 weeks ago by ★ 4.0k • written 5 weeks ago by • 0
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6 weeks ago • updated 5 weeks ago Roope • 0
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How to make boxplot with pairwise and overall p value from Limma
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6 weeks ago Chris ▴ 10
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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
0
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146
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Granges regionCounts not returning the expected number of entries
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6 weeks ago Modoc Kesner ▴ 10
0
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6 weeks ago fredrikwallberg • 0
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DMRcate error need at least two non-NA values to interpolate
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6 weeks ago Macsue • 0
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177
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No output from read.bismark with bismark cov.files
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updated 6 weeks ago by 66k • written 7 weeks ago by • 0
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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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7 weeks ago • updated 6 weeks ago fer_talavera • 0
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Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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How to extract the coordinate of dba.plotPCA?
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7 weeks ago Pierre Lindenbaum ▴ 10
3
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Using Granges to find overlapping pairs at exactly 10kb distance
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8 weeks ago gshweta95 • 0
2
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238
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Only positive enrichment score in GSEA
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updated 8 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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8 weeks ago mayra.haedo • 0
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8 weeks ago samuel.channon • 0
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Extracting genomic sequences using agat and bedtools yields different results
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8 weeks ago BID • 0
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10 weeks ago • updated 9 weeks ago red_bricks ▴ 50
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10 weeks ago jean-christophe.helbling • 0
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updated 10 weeks ago by ★ 4.1k • written 10 weeks ago by ▴ 40
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10 weeks ago mpuli011 • 0
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11 weeks ago • updated 9 weeks ago Giovanni Calice ▴ 160
405 results • Page 2 of 9
Recent ...
Replies
Comment: Ensembl plants at annotationHub? by Johannes Rainer ★ 2.0k
You can get the `EnsDb` EnsDb.Taestivum.v112.sqlite (for Ensembl 112/ ensemblgenomes 59) [here](https://www.dropbox.com/sh/msic0luivbldmb7/…
Comment: Errors in chromosome annotation-biomaRt by blackwidowzzz • 0
I recommend using a different dataset specific to your rat genome assembly version 8. You can search for available datasets within Ensembl …
Answer: Errors in chromosome annotation-biomaRt by James W. MacDonald 66k
If you are just using HGNC symbols for the lookup, and you are trying to get NCBI IDs, then I wouldn't use `biomaRt` because it's based on …
Comment: Help with ENmix readidat by James W. MacDonald 66k
Please don't add to posts from two years ago. Instead make a new post. Also, please read the help page for `readidat`. The only reason to …
Comment: LRT, more than two conditions and pairwise comparisons by James W. MacDonald 66k
In that case, probably easiest to subset to the groups being compared.
Votes
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
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