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2
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2
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71
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Converting Probe IDs to HGNC symbols
Annotation
biomaRt
GEOquery
2 days ago • updated 6 hours ago
Manav
▴ 10
0
votes
3
replies
127
views
How to do differential expresion across time serise with edgeR?
edgeR
timecoursedata
updated 1 day ago by
Gordon Smyth
53k • written 2 days ago by
petergrahamclark
▴ 10
0
votes
1
reply
159
views
Guitar R package requires update due to dependency GenomicFeatures
GenomicFeatures
Guitar
txdbmaker
GenomicRanges
updated 15 hours ago by
Sean Davis
21k • written 6 days ago by
ferran.llobet.cabau
• 0
0
votes
2
replies
123
views
ATACseq rudimentary questions
ATACSeq
DiffBind
8 days ago • updated 2 days ago
4747
• 0
0
votes
0
replies
115
views
Clarification on counting in Rsubread (featureCounts)
featureCounts
Rsubread
updated 3 days ago by
Kevin Blighe
★ 4.0k • written 20 days ago by
Luca
• 0
1
vote
1
reply
97
views
How to install packages such as TCGAbiolinks, SumarizedExperiment?
TCGAbiolinks
SummarizedExperiment
updated 4 days ago by
Gordon Smyth
53k • written 4 days ago by
NewRUser
• 0
0
votes
4
replies
5.4k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 2.7 years ago by
mauricio.microbiol
• 0
4
votes
2
replies
203
views
Limma-voom sample weights and impact on DEG numbers
limma
12 days ago • updated just now
A.Barden
▴ 20
0
votes
1
reply
160
views
wgcna module preseravtion taking too long?
WGCNA
updated 12 days ago by
ATpoint
★ 5.0k • written 19 days ago by
lamia11me
• 0
0
votes
1
reply
247
views
Question about RE-agnostic mode for intact Hi-C and Micro-C normalization(HiCDCPlus)
HiC
HiCDCPlus
written 26 days ago by
Chaoability
• 0
0
votes
3
replies
202
views
DESeq2 - how many surrogate variables from svaseq, use of lfcshrink
sva
lfcshrink
DESeq2
written 16 days ago by
ja569116
• 0
0
votes
6
replies
2.7k
views
Ensembl site unresponsive via biomaRt
biomaRt
written 9 months ago by
hebda
• 0
0
votes
3
replies
233
views
segfault in edgeR glmQLFit
edgeR
updated 13 days ago by
Gordon Smyth
53k • written 16 days ago by
Mark
• 0
0
votes
3
replies
335
views
How does contrasts.fit do in limma to extract comparisons with a model having interaction terms?
limma
updated 16 days ago by
Gordon Smyth
53k • written 17 days ago by
Durian
• 0
0
votes
1
reply
111
views
News:
Opportunity to host EuroBioC2026 Preconference workshops!
Conference
Workshop
Bioconductor
updated 2 days ago by
TikTsokaasocissalpc
• 0 • written 18 days ago by
laurah ondari
• 0
0
votes
1
reply
135
views
NUPOP usage
TOAST
updated 24 days ago by
shepherl
4.2k • written 24 days ago by
Mohammad
• 0
1
vote
2
replies
313
views
News:
Important: Bioconductor Release 3.22 Delayed
release
written 9 weeks ago by
shepherl
4.2k
0
votes
2
replies
255
views
BiocParallel (and DESeq2) - wrong args for environment subassignment
BiocParallel
DESeq2
updated 4 weeks ago by
Michael Love
43k • written 4 weeks ago by
Benjamin
• 0
0
votes
1
reply
200
views
PTM analysis in LIMPA
limpa
updated 4 weeks ago by
Gordon Smyth
53k • written 4 weeks ago by
Diego FGR
• 0
1
vote
1
reply
232
views
News:
Upcoming Ensembl API and data access changes - new blog post available
ensembl
mart
biomaRt
ensembldb
updated 2 days ago by
TikTsokaasocissalpc
• 0 • written 4 weeks ago by
Ensembl_Jorge
▴ 10
0
votes
2
replies
235
views
problem reading bam files into nucleR
nucleR
updated 4 weeks ago by
James W. MacDonald
68k • written 5 weeks ago by
efoss
▴ 10
0
votes
0
replies
14
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
4 weeks ago
Maya
0
0
votes
0
replies
9
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
TOAST
4 weeks ago
Maya
0
0
votes
0
replies
9
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
4 weeks ago
Maya
0
0
votes
0
replies
8
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
4 weeks ago
Maya
0
0
votes
0
replies
9
views
Spam:
Career Growth After CCNP Certification Training: Roles, Salaries & Opportunities
ScreenR
4 weeks ago
Maya
0
3
votes
6
replies
958
views
Highly similar RNA-seq samples in PCA - pooling or technical duplication?
RNASeq
DESeq2
DifferentialExpression
RNASeqData
written 6 weeks ago by
Ahmed Salah
• 0
0
votes
1
reply
1.3k
views
two questions about limma
Microarray
limma
Microarray
limma
updated 5 weeks ago by
Gordon Smyth
53k • written 18.8 years ago by
De-Jian ZHAO
▴ 240
0
votes
1
reply
187
views
Question about DESeq2 Design for Paired Treatment Study
DESeq2
updated 5 weeks ago by
ATpoint
★ 5.0k • written 5 weeks ago by
Junmo
• 0
0
votes
1
reply
220
views
News:
EuroBioC2026 abstract submission is open!
Conference
Bioconductor
updated 14 days ago by
TikTsokaasocissalpc
• 0 • written 5 weeks ago by
laurah ondari
• 0
0
votes
1
reply
156
views
PFAM formats changed - is it still possible to use this with ISA?
IsoformSwitchAnalyzeR
updated 15 days ago by
TikTsokaasocissalpc
• 0 • written 5 weeks ago by
bolusharris
• 0
0
votes
2
replies
254
views
DECIPHER DesignProbes unable to design FISH-probes
decipher
FISH
DECIPHER
FISH-probe
probe-design
updated 12 days ago by
TikTsokaasocissalpc
• 0 • written 5 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
446
views
Large logFC but somewhat high FDR
limpa
5 weeks ago • updated 4 weeks ago
JKim
• 0
0
votes
1
reply
264
views
Job:
Bioinformatician at the Lausanne University Hospital
GenomicRanges
JobPosting
updated 12 days ago by
TikTsokaasocissalpc
• 0 • written 5 weeks ago by
story.benjamin
▴ 20
3
votes
5
replies
518
views
upstream git branches of bioc-release
Bioconductor
written 5 weeks ago by
Jeroen
▴ 10
0
votes
2
replies
201
views
limpa - drivers for unusually high standard error?
limpa
updated 6 weeks ago by
Gordon Smyth
53k • written 6 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 23 days ago by
fnfgame
• 0 • written 8 months ago by
Franz Bachmann
• 0
0
votes
1
reply
435
views
Boolean Gate Combination for Any 2 Positive Events in flowWorkspace
flowWorkspace
FlowCytometry
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
Valeria
• 0
0
votes
2
replies
1.1k
views
Install old version of DESeq2
apeglm
Install
DESeq2
version
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
Asma
• 0
0
votes
1
reply
416
views
Guidance Requested on GCN Network Analysis and Module Enrichment in R
BioNERO
Bioconductor
Arabidopsis_thaliana_Data
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
Sabina
• 0
0
votes
2
replies
399
views
ORFik: spliced 5utr regions
splicing
5utr
ORFik
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
luna.picello
• 0
0
votes
2
replies
497
views
BiocManager::install() doesn't work
Install
Biocond
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
flying_breadman
• 0
0
votes
2
replies
371
views
Results with PON give more variants
mutect2
variants
pon
written 5 months ago by
ramiro.barrantes
▴ 10
0
votes
2
replies
372
views
Empty boxes in treemap plot rrvgo package
rrvgo
updated 8 days ago by
TikTsokaasocissalpc
• 0 • written 5 months ago by
Asma
• 0
0
votes
1
reply
303
views
CRISPRSeek Question: changing weight and gRNA.size causes error
CRISPRseek
CRISPR
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
Citrus
• 0
0
votes
2
replies
522
views
Feedback needed on new user-friendly BED file tool
bedbaser
offtopic
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
nadia
• 0
0
votes
1
reply
291
views
sigDF object in sesame
sesame
sesameData
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 4 months ago by
Ramiro
• 0
0
votes
3
replies
411
views
Create consensusMatrix for codon bases
Biostrings
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 4 months ago by
Hassan
• 0
0
votes
2
replies
475
views
Memory error while running alignments
DECIPHER
Alignment
updated 6 weeks ago by
Kevin Blighe
★ 4.0k • written 5 months ago by
Mihir
• 0
46,705 results • Page
1 of 935
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Replies
Comment: Converting Probe IDs to HGNC symbols
by
Manav
▴ 10
ah thank u so much
Comment: Guitar R package requires update due to dependency GenomicFeatures
by
Sean Davis
21k
A great way to communicate such a nice troubleshooting and bug fix hint is to file an issue in github: https://github.com/lzcyzm/Guitar/iss…
Answer: Converting Probe IDs to HGNC symbols
by
Sean Davis
21k
The brainarray annotations are very confusing, as the IDs in the fData look like affymetrix probe IDs. To clarify, the brainarray project m…
Comment: How to do differential expresion across time serise with edgeR?
by
Gordon Smyth
53k
If you have fake replicates, then I think my code answers your question about how to run the edgeR time-course analysis. Regarding tutoria…
Comment: How to do differential expresion across time serise with edgeR?
by
petergrahamclark
▴ 10
The use case is kinetic model parameterisation. I'm actually a systems biologist not a bioinformatician. (which is why I'm struggling here)…
Votes
Answer: Limma-voom sample weights and impact on DEG numbers
Answer: Limma-voom sample weights and impact on DEG numbers
Answer: Converting Probe IDs to HGNC symbols
Converting Probe IDs to HGNC symbols
Answer: How to install packages such as TCGAbiolinks, SumarizedExperiment?
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