7
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1
reply
15k
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ERROR: No residual degrees of freedom in linear model fits
Microarray
updated 15 months ago by • 0 • written 10.1 years ago by ▴ 40
12
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15
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15k
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updated 5.8 years ago by ★ 3.0k • written 5.8 years ago by ▴ 40
0
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4
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15k
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hclust(d, method = method) : NA/NaN/Inf in foreign function call (arg 10)
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updated 20 months ago by 65k • written 2.7 years ago by • 0
2
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4
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15k
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biomaRt has encountered an unexpected server error.
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updated 23 months ago by • 0 • written 4.1 years ago by • 0
2
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5
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DESeq2: Paired Test
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10.1 years ago Pankaj Agarwal ▴ 100
9
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21
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ah <- AnnotationHub() Error in UseMethod("filter_"): no applicable method for 'filter_' applied to an object of class "c('tbl_SQLiteConnection', 'tb…
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updated 21 months ago by ▴ 10 • written 3.5 years ago by ▴ 40
4
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7
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package ‘edgeR’ is not available (for R version 3.1.2)
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9.3 years ago Patrick Schorderet ▴ 20
0
votes
2
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15k
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Error: install Bioconductor packages using BiocManager
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updated 4.6 years ago by 3.9k • written 4.6 years ago by • 0
25
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7
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Usability of ERCC spike-ins in standard RNAseq experiments
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updated 7.6 years ago by ★ 3.7k • written 7.6 years ago by ▴ 30
21
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5
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updated 9.0 years ago by 50k • written 10.0 years ago by ▴ 190
8
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17
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15k
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WGCNA for RNA-Seq Sample Set, Outliers, and Spearman correlation
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updated 8.7 years ago by • 0 • written 9.2 years ago by ▴ 150
5
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14
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14k
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How to load GEO series matrix file in R Bioconductor
geoquery
updated 8.8 years ago by 21k • written 8.8 years ago by ▴ 10
3
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6
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14k
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Error: Faceting variables must have at least one value when plotting with ChIPQC
ChipQC chipqc
updated 19 months ago by • 0 • written 7.7 years ago by ▴ 10
16
votes
5
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14k
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Error: Bioconductor version '3.8' requires R version '3.5'
software error
updated 5.0 years ago by ★ 6.5k • written 5.0 years ago by ▴ 10
34
votes
21
replies
14k
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DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
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9.7 years ago • updated 19 months ago Michael Love 42k
3
votes
17
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14k
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DESeq2 installation error
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updated 6.6 years ago by ▴ 100 • written 8.7 years ago by • 0
3
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11
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14k
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Problems updating Bioconductor with R 3.2.0
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updated 9.1 years ago by ★ 8.2k • written 9.1 years ago by ▴ 10
6
votes
1
reply
14k
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Deseq2 PCA plot customize
deseq2 pca
updated 8.3 years ago by 42k • written 8.3 years ago by ▴ 40
3
votes
5
replies
14k
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cannot find -llapack + -lblas for package install
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9.0 years ago Eric P ▴ 10
0
votes
1
reply
14k
views
operations are possible only for numeric, logical or complex types
hgu133plus2 pathview hgu133plus2 pathview
updated 10.4 years ago by ★ 1.6k • written 10.4 years ago by ★ 13k
6
votes
5
replies
14k
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Installation of package DESeq2
deseq2 rcurl annotate genefilter geneplotter
updated 7.4 years ago by 25k • written 7.4 years ago by ▴ 10
14
votes
4
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14k
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WGCNA Hub Gene Selection Method
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updated 8.8 years ago by ★ 3.0k • written 8.8 years ago by ▴ 150
2
votes
13
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14k
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Issues connecting with R 3.2.2 to source("http://bioconductor.org/biocLite.R")
spade
8.5 years ago frostbite907 • 0
18
votes
24
replies
14k
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[DESeq2] time series strain-specific differences over time
deseq2 timecourse
updated 3.3 years ago by • 0 • written 9.2 years ago by ▴ 120
0
votes
5
replies
14k
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cannot open file './', reason 'Permission denied' in: file(file, "r")
updated 16.8 years ago by ★ 13k • written 16.8 years ago by ▴ 50
5
votes
8
replies
14k
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Ensembl site unresponsive
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updated 3.1 years ago by • 0 • written 3.6 years ago by ▴ 40
4
votes
7
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14k
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updated 8 months ago by 50k • written 22 months ago by ▴ 30
1
vote
13
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14k
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Count matrix from Kallisto as input for DESeq2
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7.7 years ago yjliu1127 • 0
0
votes
1
reply
14k
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error under "hclust" for expression data
Clustering Clustering
updated 12.0 years ago by ▴ 610 • written 12.0 years ago by ▴ 180
6
votes
4
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14k
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EdgeR Design matrix not of full rank
edger
updated 9.0 years ago by 50k • written 9.0 years ago by • 0
1
vote
13
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14k
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GeneList issue ClusterProfiler
genelist clusterprofiler
7.0 years ago bhgyu ▴ 30
13
votes
20
replies
14k
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Can I feed TCGA normalized count data to EdgeR for differential gene expression analysis
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updated 9.2 years ago by ▴ 130 • written 9.2 years ago by ▴ 10
4
votes
1
reply
14k
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The latest version of R is 3.5.1 and it is not compatible with many Bioconductor packages.
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5.7 years ago ansari.sarabio • 0
0
votes
9
replies
13k
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edgeR warnings and then error
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updated 11.5 years ago by 50k • written 11.5 years ago by ▴ 560
11
votes
5
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13k
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Limma: how to get same output as topTable but for all the genes ?
limma toptable
updated 6.8 years ago by 50k • written 15.5 years ago by ▴ 190
2
votes
12
replies
13k
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Error in dimnames(x) <- dn : length of 'dimnames' [1] not equal to array extent
flowcore spillover
updated 6.4 years ago by ★ 1.3k • written 6.4 years ago by ▴ 20
0
votes
3
replies
13k
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Problem installing tximportData
tximportdata
7.2 years ago elg • 0
3
votes
1
reply
13k
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convert data in to expression set
limma convert limma convert
updated 10.9 years ago by ▴ 180 • written 10.9 years ago by ▴ 80
15
votes
9
replies
13k
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Best way to convert uniprot accessions to entrez gene identifiers in R
org.hs.eg.db uniprot accessions entrez gene identifiers
updated 8.7 years ago by 65k • written 8.7 years ago by ▴ 160
0
votes
5
replies
13k
views
Error:The design matrix has the same number of samples and coefficients to fit, so estimation of dispersion is not possible. Treating samples as …
deseq2
updated 2.1 years ago by • 0 • written 3.6 years ago by • 0
7
votes
9
replies
13k
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Contrasts in DESeq2
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updated 21 months ago by • 0 • written 3.6 years ago by ▴ 60
3
votes
4
replies
13k
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converting ensembl transcript ID to ensemble gene: problem & missing values
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6.2 years ago Yuqia • 0
17
votes
7
replies
13k
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DESeq2 lfcShrink() usage of coef vs. usage of contrast
deseq2 lfc coef contrast
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 10
2
votes
4
replies
13k
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biomartRt: convert mouse gene symbol return multiple human gene symbol
biomart gene symbol
updated 8.8 years ago by ▴ 760 • written 9.0 years ago by ▴ 30
0
votes
4
replies
13k
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Normalization by DEseq
Genetics Normalization DESeq Genetics Normalization DESeq
updated 6.2 years ago by • 0 • written 13.6 years ago by ▴ 20
3
votes
3
replies
13k
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How to fix 'long vectors not supported yet' error in R
r
updated 6 weeks ago by • 0 • written 5.2 years ago by • 0
3
votes
4
replies
13k
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[GenomicRanges] subsetByOverlaps to keep info from both GRanges objects?
updated 10.7 years ago by ★ 6.8k • written 10.7 years ago by ▴ 660
1
vote
3
replies
13k
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Update all/some/none? [a/s/n]:
software error
updated 4.3 years ago by 65k • written 4.3 years ago by • 0
10
votes
4
replies
13k
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Removing batch effect with limma::removeBatchEffect() actually exacerbates the effect
limma deseq2
updated 4.9 years ago by 50k • written 4.9 years ago by ▴ 30
5
votes
2
replies
13k
views
Complex Heatmap - hide one legend, show 2 - out off three annotations
complexheatmap bioconductor annotation heatmap legend
8.0 years ago • updated 7.9 years ago annkatrin.goepfert ▴ 10
45,664 results • Page 4 of 914
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Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Patadù ▴ 10
Hi @marcelramos Thanks for the clarification. Yes, I have installed `org.Vdahlaie.eg.db` using the code you and Guido suggested and now i…
Comment: European Bioconductor Conference 2023 planning by angelaesper43 • 0
@Maria Doyle[sexdolltech][1]Hosting EuroBioC provides an excellent opportunity to showcase Bioconductor and computational biology research …
Comment: Ensembl plants at annotationHub? by Johannes Rainer ★ 2.0k
Dear Daniele, for which Ensembl release would you need the data? the most recent is 112, but if you used a different version before it wou…
Comment: Ensembl plants at annotationHub? by Daniele • 0
Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30
Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
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Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
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