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Are individual-mouse-based statistics possible in CellChat?
Bioconductor
CellChat
updated 1 hour ago by
ATpoint
★ 5.0k • written 6 days ago by
Omer
• 0
0
votes
6
replies
491
views
BiocParallel (and DESeq2) - wrong args for environment subassignment
BiocParallel
DESeq2
updated 17 hours ago by
Martin Morgan
25k • written 6 weeks ago by
Benjamin
• 0
0
votes
1
reply
60
views
DESeq2 - how to shrink LFC for pairwise comparisons having multiple groups
shrinkage
DESeq2
contrast
updated 1 hour ago by
ATpoint
★ 5.0k • written 3 days ago by
ja569116
• 0
1
vote
3
replies
155
views
limpa analysis advice
limpa
updated 1 day ago by
Gordon Smyth
53k • written 4 days ago by
SamGG
▴ 360
0
votes
0
replies
31
views
News:
The BioC2026 Sticker Design Contest is Open!
Bioconductor
Conference
4 days ago
laurah ondari
• 0
4
votes
2
replies
188
views
When to use edgeR or limma
edgeR
limma
updated 3 days ago by
Gordon Smyth
53k • written 6 days ago by
abzhang97
• 0
1
vote
3
replies
168
views
Incosistencies in buildSNNGraph() function
scran
seurat
written 9 days ago by
Lucas
• 0
0
votes
2
replies
673
views
A problem occurs when running the monocle2
monocle
written 4 months ago by
yuheng_yang
• 0
0
votes
3
replies
251
views
limpa-blank normalization and Spectronaut's PTM stoichiometry
limpa
updated 4 days ago by
Gordon Smyth
53k • written 6 days ago by
emily.wolfrum
• 0
0
votes
1
reply
72
views
Questions about bacon QC and correction on EWAS results
bacon
6 days ago
sup0903
• 0
3
votes
4
replies
231
views
Question about the filterByExpr function inputs in edgeR
RNASeq
filter
design
edgeR
model.matrix
6 days ago • updated 5 days ago
mohammedtoufiq91
▴ 10
0
votes
1
reply
88
views
Development of MSstat workflow to analyze DIA time series data
MSstats
updated 6 days ago by
Gordon Smyth
53k • written 6 days ago by
sithurandi
• 0
0
votes
0
replies
92
views
MSstatsPTM-SpectronauttoMSstatsPTMFormat-failing with TAIR10 Locus Tags: Issue with UniProt-centric protein ID parsing
Bioconductor
MSstatsPTM
7 days ago
srkingwu
• 0
8
votes
8
replies
2.9k
views
Confounded design, batch effect correction (edgeR)
rnaseq
edger
differential gene expression
batch effect
written 7.4 years ago by
Laura
▴ 20
0
votes
0
replies
54
views
Junction CPM via Snapcount and Recount3
snapcount
recount3
7 days ago
henry.tietz
• 0
3
votes
4
replies
334
views
Clarification on counting in Rsubread (featureCounts)
featureCounts
Rsubread
updated 6 days ago by
Gordon Smyth
53k • written 5 weeks ago by
Luca
• 0
0
votes
0
replies
49
views
News:
Online RNA-seq analysis course 26-29th Janury
EnhancedVolcano
GSEABase
pheatmap
Workshop
DESeq2
8 days ago
Frances Turner
▴ 20
0
votes
0
replies
51
views
How to convert .raw data for use in xcms
xcms
8 days ago
Monica
• 0
0
votes
0
replies
92
views
Job:
Open Positions for Doctoral Researchers in Molecular Medicine
JobPosting
8 days ago
rubina.tabassum
• 0
1
vote
0
replies
89
views
News:
Bioconductor Maintainer Application
maintainer
policy
Bioconductor
Devel
devel
10 days ago
shepherl
4.3k
0
votes
1
reply
459
views
News:
GSEA in R/Bioconductor course
GSEABenchmarkeR
pairedGSEA
GeneSetEnrichment
written 10 months ago by
info
▴ 10
0
votes
1
reply
333
views
News:
Announcing a New Journal - Bioinformatics Methods and Applications - Now Open for Submissions
Bioconductor
written 6 months ago by
Wei Shi
★ 3.6k
0
votes
2
replies
2.5k
views
ChAMP pipeline error (champ.import)
software error
written 6.8 years ago by
mhebba
• 0
0
votes
1
reply
179
views
Combining two proteomics datasets with limpa
limpa
ProteomicsWorkflow
limma
updated 12 days ago by
Gordon Smyth
53k • written 12 days ago by
Andrew Pattison
• 0
0
votes
0
replies
123
views
Job:
Jobs at Ensembl
ensembldb
14 days ago
Aleena_Ensembl
▴ 30
0
votes
0
replies
11
views
Spam:
Is there a way to map Excel fields to VCF contacts for accurate conversion?
ComputationalChemistry
Technology
Software
Website
updated 14 days ago by
shepherl
4.3k • written 14 days ago by
witebir963
0
0
votes
0
replies
75
views
Job:
Job:Computational Biologist position at the University of Alabama at Birmingham
hiring
RNASeq
JobPosting
SingleCell
SpatialData
14 days ago
lianov
• 0
2
votes
3
replies
206
views
please provide a BibTeX citation for "Advanced Single-Cell Analysis with Bioconductor"
Bioconductor
written 15 days ago by
Victor
▴ 10
2
votes
4
replies
221
views
Converting Probe IDs to HGNC symbols
Annotation
biomaRt
GEOquery
written 17 days ago by
Manav
▴ 10
0
votes
3
replies
268
views
How to do differential expresion across time serise with edgeR?
edgeR
timecoursedata
updated 16 days ago by
Gordon Smyth
53k • written 17 days ago by
petergrahamclark
▴ 10
2
votes
3
replies
430
views
Guitar R package requires update due to dependency GenomicFeatures
GenomicFeatures
Guitar
txdbmaker
GenomicRanges
written 22 days ago by
ferran.llobet.cabau
▴ 10
0
votes
2
replies
174
views
ATACseq rudimentary questions
ATACSeq
DiffBind
23 days ago • updated 17 days ago
4747
• 0
1
vote
1
reply
210
views
How to install packages such as TCGAbiolinks, SumarizedExperiment?
TCGAbiolinks
SummarizedExperiment
updated 19 days ago by
Gordon Smyth
53k • written 19 days ago by
NewRUser
• 0
0
votes
4
replies
5.6k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 2.8 years ago by
mauricio.microbiol
• 0
4
votes
2
replies
380
views
Limma-voom sample weights and impact on DEG numbers
limma
28 days ago • updated 15 days ago
A.Barden
▴ 20
0
votes
1
reply
255
views
wgcna module preseravtion taking too long?
WGCNA
updated 28 days ago by
ATpoint
★ 5.0k • written 4 weeks ago by
lamia11me
• 0
0
votes
1
reply
342
views
Question about RE-agnostic mode for intact Hi-C and Micro-C normalization(HiCDCPlus)
HiC
HiCDCPlus
written 6 weeks ago by
Chaoability
• 0
0
votes
3
replies
317
views
DESeq2 - how many surrogate variables from svaseq, use of lfcshrink
sva
lfcshrink
DESeq2
4 weeks ago • updated 3 days ago
ja569116
• 0
0
votes
5
replies
2.9k
views
Ensembl site unresponsive via biomaRt
biomaRt
written 10 months ago by
hebda
• 0
0
votes
3
replies
284
views
segfault in edgeR glmQLFit
edgeR
updated 28 days ago by
Gordon Smyth
53k • written 4 weeks ago by
Mark
• 0
0
votes
4
replies
587
views
How does contrasts.fit do in limma to extract comparisons with a model having interaction terms?
limma
updated 15 days ago by
jtsy6383
• 0 • written 4 weeks ago by
Durian
• 0
0
votes
1
reply
256
views
News:
Opportunity to host EuroBioC2026 Preconference workshops!
Conference
Workshop
Bioconductor
written 4 weeks ago by
laurah ondari
• 0
0
votes
1
reply
156
views
NUPOP usage
TOAST
updated 5 weeks ago by
shepherl
4.3k • written 5 weeks ago by
Mohammad
• 0
1
vote
2
replies
357
views
News:
Important: Bioconductor Release 3.22 Delayed
release
written 12 weeks ago by
shepherl
4.3k
0
votes
1
reply
232
views
PTM analysis in LIMPA
limpa
updated 4 days ago by
Gordon Smyth
53k • written 6 weeks ago by
Diego FGR
• 0
1
vote
1
reply
272
views
News:
Upcoming Ensembl API and data access changes - new blog post available
ensembl
mart
biomaRt
ensembldb
written 6 weeks ago by
Ensembl_Jorge
▴ 10
0
votes
2
replies
278
views
problem reading bam files into nucleR
nucleR
updated 7 weeks ago by
James W. MacDonald
68k • written 7 weeks ago by
efoss
▴ 10
0
votes
0
replies
14
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
7 weeks ago
Maya
0
0
votes
0
replies
9
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
TOAST
7 weeks ago
Maya
0
0
votes
0
replies
9
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
7 weeks ago
Maya
0
46,726 results • Page
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Answer: Are individual-mouse-based statistics possible in CellChat?
by
ATpoint
★ 5.0k
Not a Bioconductor package, I commented on the crosspost at https://www.biostars.org/p/9617271/
Comment: DESeq2 - how to shrink LFC for pairwise comparisons having multiple groups
by
ATpoint
★ 5.0k
apeglm is more cumbersome than ashr as with apeglm the coefficients need to be explicitely available in the resultsNames.So, you need to re…
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment
by
Martin Morgan
25k
I see rstudioapi in the `sessionInfo()`. RStudio does not support forked ('multicore') processes. Does the BiocParallel example work when y…
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment
by
Michael Love
43k
Given that this is an issue with BiocParallel on your machine and we have a minimal reproducible example, you may want to repost the issue.…
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment
by
Benjamin
• 0
Still happening using pre-existing size factors estimating dispersions gene-wise dispersion estimates: 15 workers mean-dis…
Votes
A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen
Comment: limpa analysis advice
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
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