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2
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530
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SPIAT for HALO manual phenotype entry
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3
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4
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updated 3 months ago by • 0 • written 10.9 years ago by ▴ 30
0
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2
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934
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overlapsAny for elements in GRangesList
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updated 4 weeks ago by • 0 • written 8.0 years ago by ▴ 180
0
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2
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645
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Fluidigm Data Batch Correction
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updated 10 months ago by 50k • written 10 months ago by • 0
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3
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1.2k
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written 20.2 years ago by ▴ 50
0
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4
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flowStats Search Error
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3
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4
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501
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updated 8 days ago by ★ 6.5k • written 11 days ago by • 0
0
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5
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716
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written 11 months ago by • 0
1
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3
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540
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Merging Methylation data (M-values) with phenotypic data
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updated 8 months ago by 65k • written 9 months ago by • 0
0
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3
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2.5k
views
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updated 6 months ago by • 0 • written 9.2 years ago by • 0
1
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2
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453
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EdgeR: Exact test and glmQLFTest produce very different results
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1
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6
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521
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GSVA on separate healthy and disease datasets
GSVA
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5
votes
6
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873
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ASpli checks fail on Linux due to missing dependency to statmod
ASpli
updated 9 months ago by 50k • written 9 months ago by ▴ 10
8
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9
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1.1k
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All three of the sites where genomeinfodbdata R packages are stored appear to be down.
GenomeInfoDbData
9 months ago 15753563659 ▴ 50
0
votes
3
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479
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'Subtracting' counts on basis of Negative control media and water samples
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5 months ago Karthik • 0
2
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7
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Installing Local packages in Bioconductor
package
updated 9 months ago by • 0 • written 2.0 years ago by • 0
1
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5
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452
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Biostrings: read*StringSet() functions leave open file handles
Biostrings
9 weeks ago • updated 8 weeks ago Gerhard Thallinger ▴ 180
3
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11
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SD filtering before DEG analysis with limma : possible or not ?
filtering STD DEG limma
updated 10 months ago by 50k • written 10 months ago by • 0
9
votes
13
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6.7k
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GSEA many significant gene sets despite no differentially expressed genes
GSEA GeneSetEnrichment DifferentialExpression
updated 3 months ago by ★ 4.1k • written 2.2 years ago by ▴ 30
0
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2
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error when using M-values in ChAMP
ChAMP
updated 7 weeks ago by • 0 • written 6.3 years ago by • 0
0
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2
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105
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Batch effect correction: methylome data
sesame BatchEffect MethylationArray
updated 2 days ago by ▴ 10 • written 4 days ago by • 0
0
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4
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limma with interaction term
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3 months ago • updated 11 weeks ago Jitendra ▴ 10
1
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3
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911
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Problem in running DESeq from expected count data of Transcriptome by Trinity followed by RSEM
Tissue Spati RSEM deno DEseq2
updated 11 months ago by • 0 • written 12 months ago by • 0
5
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19
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DiffBind GreyListChIP error: Error: BiocParallel errors
DiffBind
updated 9 months ago by • 0 • written 2.8 years ago by ▴ 10
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9
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867
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estimateDisp() error
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updated 9 months ago by 50k • written 9 months ago by • 0
2
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Question about RNAseq analysis in EdgeR to identify common and donor specific differentially expressed genes
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9 months ago mohammedtoufiq91 ▴ 10
0
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6
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361
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unable to access Annotationhub latest record
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updated 5 weeks ago by ▴ 180 • written 6 weeks ago by • 0
5
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2
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597
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Filter genes by expression for voomLmFit
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updated 5 months ago by 50k • written 5 months ago by • 0
10
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biomaRt not working - lazy table error
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updated 8 weeks ago by • 0 • written 6 months ago by ▴ 10
1
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7
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enrichGOgradient color change
clusterProfiler
updated 8 weeks ago by ★ 4.0k • written 6 months ago by • 0
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2
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382
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Is DESeq2 normalisation appropriate when counts were obtained for a small number of genes?
DESeq2
updated 10 weeks ago by ★ 4.1k • written 11 weeks ago by • 0
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11
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1.1k
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Packages don't update, but no error or warning is thrown
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3 months ago gernophil • 0
2
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6
replies
378
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Factor vs Character in design
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10 weeks ago James Aiden • 0
0
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5
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DiffBind handling of replicates and consensus
diffbind
updated 7 months ago by ★ 5.2k • written 4.3 years ago by • 0
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9
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edgeR: Should there be a normalization step for CRISPR screens? How to deal with bottlenecked screens?
edger calcnormfactors
updated 8 months ago by • 0 • written 6.5 years ago by ▴ 10
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votes
2
replies
375
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In DiffBind, dba.blacklist changes the minOverlap parameter
DiffBind
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0
votes
2
replies
873
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DiffBind dropping peaks in ATAC-seq data
DiffBind ATACSeq
updated 9 months ago by ★ 1.6k • written 9 months ago by • 0
0
votes
3
replies
173
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Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 27 days ago by 65k • written 27 days ago by ▴ 30
1
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3
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How does DESeq2 calculate FPKM values when gene lengths are not supplied?
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Why p value inconsistent when using different number of pathway score?
limma
26 days ago • updated 15 days ago Chris ▴ 10
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Blood cell composition adjustment in methylation EPIC array: ChAMP
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9
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856
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biomaRt has encountered an unknown server error.
biomaRt host useEnsembl
updated 3 months ago by • 0 • written 3 months ago by • 0
2
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3
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Using STAR's readspergene.tab.out outputs to make gene-level count matrix for DESeq2 using tximport
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updated 4 months ago by ★ 1.4k • written 5 months ago by • 0
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2
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Extract genes from ggvenn?
ggvenn
updated 5 weeks ago by ▴ 10 • written 2.0 years ago by • 0
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Method to find pathways different between 2 groups
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2
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Error: BiocParallel errors
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8 months ago mavamay • 0
0
votes
4
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917
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Handle zero effective gene length when tximport RSEM results
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Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
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