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How to convert .raw data for use in xcms
xcms
1 hour ago
Monica
• 0
0
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0
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10
views
Job:
Open Positions for Doctoral Researchers in Molecular Medicine
JobPosting
1 hour ago
rubina.tabassum
• 0
1
vote
2
replies
69
views
Incosistencies in buildSNNGraph() function
scran
seurat
updated 21 hours ago by
ATpoint
★ 5.0k • written 1 day ago by
Lucas
• 0
1
vote
0
replies
41
views
News:
Bioconductor Maintainer Application
maintainer
policy
Bioconductor
Devel
devel
2 days ago
shepherl
4.3k
0
votes
1
reply
430
views
News:
GSEA in R/Bioconductor course
GSEABenchmarkeR
pairedGSEA
GeneSetEnrichment
written 10 months ago by
info
▴ 10
0
votes
1
reply
305
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
116
views
Combining two proteomics datasets with limpa
limpa
ProteomicsWorkflow
limma
updated 4 days ago by
Gordon Smyth
53k • written 4 days ago by
Andrew Pattison
• 0
0
votes
0
replies
77
views
Job:
Jobs at Ensembl
ensembldb
6 days ago
Aleena_Ensembl
▴ 30
0
votes
0
replies
11
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Spam:
Is there a way to map Excel fields to VCF contacts for accurate conversion?
ComputationalChemistry
Technology
Software
Website
updated 6 days ago by
shepherl
4.3k • written 6 days ago by
witebir963
0
0
votes
0
replies
58
views
Job:
Job:Computational Biologist position at the University of Alabama at Birmingham
hiring
RNASeq
JobPosting
SingleCell
SpatialData
6 days ago
lianov
• 0
2
votes
3
replies
159
views
please provide a BibTeX citation for "Advanced Single-Cell Analysis with Bioconductor"
Bioconductor
written 7 days ago by
Victor
▴ 10
2
votes
4
replies
186
views
Converting Probe IDs to HGNC symbols
Annotation
biomaRt
GEOquery
written 9 days ago by
Manav
▴ 10
0
votes
3
replies
225
views
How to do differential expresion across time serise with edgeR?
edgeR
timecoursedata
updated 8 days ago by
Gordon Smyth
53k • written 9 days ago by
petergrahamclark
▴ 10
2
votes
3
replies
366
views
Guitar R package requires update due to dependency GenomicFeatures
GenomicFeatures
Guitar
txdbmaker
GenomicRanges
written 13 days ago by
ferran.llobet.cabau
▴ 10
0
votes
2
replies
155
views
ATACseq rudimentary questions
ATACSeq
DiffBind
15 days ago • updated 9 days ago
4747
• 0
0
votes
0
replies
135
views
Clarification on counting in Rsubread (featureCounts)
featureCounts
Rsubread
updated 10 days ago by
Kevin Blighe
★ 4.0k • written 28 days ago by
Luca
• 0
1
vote
1
reply
167
views
How to install packages such as TCGAbiolinks, SumarizedExperiment?
TCGAbiolinks
SummarizedExperiment
updated 11 days ago by
Gordon Smyth
53k • written 11 days ago by
NewRUser
• 0
0
votes
4
replies
5.5k
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
300
views
Limma-voom sample weights and impact on DEG numbers
limma
19 days ago • updated 7 days ago
A.Barden
▴ 20
0
votes
1
reply
205
views
wgcna module preseravtion taking too long?
WGCNA
updated 19 days ago by
ATpoint
★ 5.0k • written 26 days ago by
lamia11me
• 0
0
votes
1
reply
290
views
Question about RE-agnostic mode for intact Hi-C and Micro-C normalization(HiCDCPlus)
HiC
HiCDCPlus
written 4 weeks ago by
Chaoability
• 0
0
votes
3
replies
233
views
DESeq2 - how many surrogate variables from svaseq, use of lfcshrink
sva
lfcshrink
DESeq2
written 23 days ago by
ja569116
• 0
0
votes
6
replies
2.8k
views
Ensembl site unresponsive via biomaRt
biomaRt
written 9 months ago by
hebda
• 0
0
votes
3
replies
262
views
segfault in edgeR glmQLFit
edgeR
updated 20 days ago by
Gordon Smyth
53k • written 23 days ago by
Mark
• 0
0
votes
4
replies
554
views
How does contrasts.fit do in limma to extract comparisons with a model having interaction terms?
limma
updated 6 days ago by
jtsy6383
• 0 • written 24 days ago by
Durian
• 0
0
votes
1
reply
198
views
News:
Opportunity to host EuroBioC2026 Preconference workshops!
Conference
Workshop
Bioconductor
updated 1 day ago by
TikTsokaas33ocissalpc
• 0 • written 25 days ago by
laurah ondari
• 0
0
votes
1
reply
143
views
NUPOP usage
TOAST
updated 4 weeks ago by
shepherl
4.3k • written 4 weeks ago by
Mohammad
• 0
1
vote
2
replies
332
views
News:
Important: Bioconductor Release 3.22 Delayed
release
written 10 weeks ago by
shepherl
4.3k
0
votes
2
replies
278
views
BiocParallel (and DESeq2) - wrong args for environment subassignment
BiocParallel
DESeq2
updated 5 weeks ago by
Michael Love
43k • written 5 weeks ago by
Benjamin
• 0
0
votes
1
reply
212
views
PTM analysis in LIMPA
limpa
updated 5 weeks ago by
Gordon Smyth
53k • written 5 weeks ago by
Diego FGR
• 0
1
vote
1
reply
257
views
News:
Upcoming Ensembl API and data access changes - new blog post available
ensembl
mart
biomaRt
ensembldb
written 5 weeks ago by
Ensembl_Jorge
▴ 10
0
votes
2
replies
259
views
problem reading bam files into nucleR
nucleR
updated 5 weeks ago by
James W. MacDonald
68k • written 6 weeks ago by
efoss
▴ 10
0
votes
0
replies
14
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
5 weeks ago
Maya
0
0
votes
0
replies
9
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
TOAST
5 weeks ago
Maya
0
0
votes
0
replies
9
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
5 weeks ago
Maya
0
0
votes
0
replies
8
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
5 weeks ago
Maya
0
0
votes
0
replies
9
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
5 weeks ago
Maya
0
3
votes
6
replies
985
views
Highly similar RNA-seq samples in PCA - pooling or technical duplication?
RNASeq
DESeq2
DifferentialExpression
RNASeqData
written 7 weeks ago by
Ahmed Salah
• 0
0
votes
1
reply
1.3k
views
two questions about limma
Microarray
limma
Microarray
limma
updated 6 weeks ago by
Gordon Smyth
53k • written 18.9 years ago by
De-Jian ZHAO
▴ 240
0
votes
1
reply
212
views
Question about DESeq2 Design for Paired Treatment Study
DESeq2
updated 6 weeks ago by
ATpoint
★ 5.0k • written 6 weeks ago by
Junmo
• 0
0
votes
1
reply
290
views
News:
EuroBioC2026 abstract submission is open!
Conference
Bioconductor
written 6 weeks ago by
laurah ondari
• 0
0
votes
1
reply
169
views
PFAM formats changed - is it still possible to use this with ISA?
IsoformSwitchAnalyzeR
written 6 weeks ago by
bolusharris
• 0
0
votes
3
replies
295
views
DECIPHER DesignProbes unable to design FISH-probes
decipher
FISH
DECIPHER
FISH-probe
probe-design
written 6 weeks ago by
vreinmuth
• 0
0
votes
2
replies
1.3k
views
p.adjust BH Question
written 14.3 years ago by
David Young
▴ 10
1
vote
4
replies
458
views
Large logFC but somewhat high FDR
limpa
6 weeks ago • updated 5 weeks ago
JK
• 0
0
votes
1
reply
281
views
Job:
Bioinformatician at the Lausanne University Hospital
GenomicRanges
JobPosting
written 6 weeks ago by
story.benjamin
▴ 20
3
votes
5
replies
543
views
upstream git branches of bioc-release
Bioconductor
written 6 weeks ago by
Jeroen
▴ 10
0
votes
2
replies
222
views
limpa - drivers for unusually high standard error?
limpa
updated 7 weeks ago by
Gordon Smyth
53k • written 7 weeks ago by
Julia Broadbent
• 0
1
vote
4
replies
2.0k
views
How can I correctly use phyloseq with Docker?
phylo
phyloseq
Docker
updated 4 weeks ago by
fnfgame
• 0 • written 8 months ago by
Franz Bachmann
• 0
46,714 results • Page
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Comment: Incosistencies in buildSNNGraph() function
by
ATpoint
★ 5.0k
Just played with this a bit and I think it comes down to not having a fixed seed before running the leiden thingy. Same goes for PCA and UM…
Answer: Incosistencies in buildSNNGraph() function
by
Aaron Lun
★ 29k
The most obvious thing that comes to mind is the RNG seed. `cluster_leiden()` does some random number generation, somewhere deep in the **i…
Comment: Opportunity to host EuroBioC2026 Preconference workshops!
by
TikTsokaas33ocissalpc
• 0
Thank you for sharing the EuroBioC2026 workshop opportunity. I m interested in hosting a hands on session teaching reproducible data analys…
Comment: Ensembl plants at annotationHub?
by
jwp48
• 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa
by
Gordon Smyth
53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
Votes
Answer: Incosistencies in buildSNNGraph() function
Answer: Where do the filename come from in the LOLA datasets?
Bioconductor Maintainer Application
A: What is logFC and "B" in methylation analysis ??
limma moderated t-statistics and B-statistics
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