0
votes
0
replies
255
views
Corrupted SQLite while trying to install PANTHER.db?
SQLite PANTHER.db
updated 4 weeks ago by ★ 4.0k • written 3 months ago by • 0
0
votes
1
reply
335
views
org.Ss.eg.db MAMDC4 maps to incorrect UNIPROT key
MAMDC4 org.Ss.eg.db AnnotationDbi
written 3 months ago by • 0
0
votes
1
reply
319
views
Length of 'dimnames' [1] not equal to array extent
SingleCellExperiment singlecelle scRNAseq
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0
votes
1
reply
334
views
Extract snp information from genomic regions with biomaRt -> "oaries_snp"
biomaRt
updated 4 weeks ago by ★ 4.0k • written 3 months ago by • 0
0
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2
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331
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3-factor DESeq2 trime-series analysis
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0
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1
reply
274
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Questions about pseudo counts from RUVSeq
RUVSeq
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0
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0
replies
277
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Problem with viewGO(ref_path) in SpliceWiz
Bioconductor SpliceWiz
updated 4 weeks ago by ★ 4.0k • written 3 months ago by • 0
0
votes
1
reply
316
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GOseq Probability Weight Function bad fit
goseq
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0
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0
replies
119
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[DESeq2] Changing dispersion estimates between runs of DESeq2
DESeq2
updated 4 weeks ago by ★ 4.0k • written 5 weeks ago by • 0
0
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2
replies
143
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APAlyzer
APAlyzer
updated 4 weeks ago by ★ 4.0k • written 4 weeks ago by ▴ 10
2
votes
2
replies
271
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Identifying differentially expressed genes in individual samples from a large cohort
limma DifferentialExpression
4 weeks ago jamie.gearing ▴ 60
0
votes
2
replies
194
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Alternative to BrainArray custom CDF packages for Affymetrix chips?
Bioconductor
updated 4 weeks ago by ★ 4.1k • written 5 weeks ago by ▴ 600
1
vote
2
replies
254
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Error installing Seqinfo
Seqinfo S4Vectors
updated 4 weeks ago by 4.2k • written 4 weeks ago by • 0
1
vote
0
replies
84
views
News: Bioconductor Seminar Series - Dec 2: Deep-learning Gene Perturbation Effect Prediction
Bioconductor
5 weeks ago Maria Doyle ▴ 110
0
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4
replies
214
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Getting a large intercept with DESeq2
DESeq2 DifferentialExpression TimeCourse
5 weeks ago • updated 4 weeks ago Denise • 0
2
votes
2
replies
204
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Post translational modifications and phosphoproteomics in limpa?
limpa
5 weeks ago • updated 29 days ago james.eapen • 0
0
votes
1
reply
134
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Add additional maintainer for MOFA2
MOFA2
updated 5 weeks ago by 4.2k • written 5 weeks ago by • 0
1
vote
3
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415
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gene Set with high AUC score but no cells assigned to cell type
AUCell
12 weeks ago • updated 25 days ago gogeni5529 • 0
0
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2
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286
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featureCounts -L: high unassigned:mapq fraction
Bioconductor
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1
vote
2
replies
447
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Streamlining the computing time for MiloDE p-value correction in large dataset?
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updated 5 weeks ago by ★ 4.0k • written 11 weeks ago by • 0
1
vote
2
replies
389
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incomplete imputation of missing values with LEA impute() function
Bioconductor LEA
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0
votes
2
replies
281
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A problem occurs when running the monocle2
monocle
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5
votes
3
replies
433
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Issues with downloading biomaRt - SeqInfo and S4 Vectors
S4Vectors biomaRt Seqinfo
updated 6 weeks ago by 68k • written 6 weeks ago by ▴ 10
2
votes
2
replies
531
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What R/Bioconductor tools would you recommend for the analysis of sncRNA, specifically piRNA?
Bioconductor
11 weeks ago • updated 5 weeks ago Matthew Thornton ▴ 390
0
votes
2
replies
160
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VariantAnnotation not does escape = within header string quotes
VariantAnnotation
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0
votes
2
replies
228
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Setting up a DESeq2 Design with Paired Data
DESeq2
6 weeks ago Alexander • 0
2
votes
2
replies
150
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Suppress warning in RHDF5 write
rhdf5
6 weeks ago nicolas.lhuillier • 0
2
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2
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159
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Failure to download resources (MeSHDb) from AnnotationHub
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6 weeks ago Steve Lianoglou ★ 13k
0
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3
replies
270
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Integration: Paired-end vs healthy single-end from a different source
Bioconductor
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1
vote
4
replies
419
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"Watched Tags" are being erased rather than updated
Bioconductor
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0
votes
1
reply
239
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Question about collapsing ASVs by genus level during DESeq2 analysis
Bioconductor
updated 6 weeks ago by 43k • written 10 weeks ago by • 0
1
vote
2
replies
357
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Can limma be used with module eigengenes instead of genes?
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0
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7
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2.1k
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0
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0
replies
12
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Spam: The Neon Code PolyTrack
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7 weeks ago residentialplayt 0
2
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1
reply
256
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News: Bioconductor 3.22 Released!
release Release Bioconductor Software
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0
votes
1
reply
272
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Conference
written 7 weeks ago by • 0
0
votes
1
reply
159
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News: Save the Date: BioC2026
Bioconductor
written 7 weeks ago by 4.2k
0
votes
1
reply
190
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bake() and cool() resulting in an empty table
dar
updated 7 weeks ago by • 0 • written 7 weeks ago by • 0
0
votes
3
replies
257
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Using DESeq2 for age prediction
Bioconductor
updated 7 weeks ago by ★ 5.0k • written 7 weeks ago by • 0
0
votes
4
replies
679
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Issue with Soft-Thresholding in WGCNA
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4
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3
replies
618
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DESeq2 for candidate gene analysis
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0
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reply
2.0k
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Co-occurrence Network Analysis between Algae and Bacteria
igraph networkanalysis Phylogenetics phyloseq
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0
votes
3
replies
295
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"organism" missing in BSgenome.Hsapiens.UCSC.hg38 slotNames
Bioconductor
9 weeks ago ubjw24 • 0
0
votes
3
replies
441
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NA values for DESeq2 p-values and adjusted p-values using large sample sizes
Bioconductor
11 weeks ago • updated 9 weeks ago Gabriel • 0
0
votes
1
reply
171
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Gatins Set error
flowCore Bioconductor
updated 11 weeks ago by 68k • written 11 weeks ago by • 0
0
votes
1
reply
235
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Job: Senior Teaching Fellow (MSc Computational Biomedicine)
Bioconductor
written 11 weeks ago by • 0
0
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1
reply
224
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How to model DE for RNA-seq in concordant monozygotic twins?
RNASeq variancePartition RUVSeq limma edgeR
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0
votes
1
reply
446
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News: Bioconductor 3.22 Release Schedule
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written 3 months ago by 4.2k
1
vote
11
replies
7.4k
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DiffBind - question on the use of filtered or unfiltered input data
DiffBind
written 2.7 years ago by ▴ 10
0
votes
2
replies
429
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Help with defining groups
limpa
12 weeks ago • updated 10 weeks ago Phinney, Brett ▴ 10
46,699 results • Page 2 of 934
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Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by Gordon Smyth 53k
I refered you to the DiffVar package 11 months ago. Did you consider it? Your clarification makes it clear that your issue is not with lim…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reply Gordon. I am also working on the project and have been tasked to reformulate and add some details. We're interested i…
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The limma Users Guide explains how to test for interactions or to test for contrasts very easily. limma can work with any design matrix, bu…
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You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
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In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
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