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2
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111
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Subsetting DDS object for individual conditions over time
DESeq2
2 days ago • updated 1 day ago
A
▴ 60
0
votes
2
replies
136
views
tximeta cannot open annotation gtf?
tximeta
Bioconductor
updated 4 days ago by
Michael Love
43k • written 4 days ago by
lynn.hua.lee
• 0
1
vote
2
replies
138
views
GSEA error
gsea
GSEABenchmarkeR
5 days ago • updated 3 days ago
Adithi
• 0
0
votes
0
replies
19
views
Spam:
TOGAF Certification Training in Dallas TX | Enterprise Architecture & ADM Mastery
mouse430a2.db
BSgenome.Hsapiens.UCSC.hg17.masked
5 days ago
zebaafarheensprintzeal
0
0
votes
3
replies
161
views
Unable to find ENTREZ IDs
entrezid
ensembldb
6 days ago • updated 5 days ago
Adithi
• 0
0
votes
0
replies
14
views
Spam:
1. What is the CCIE Enterprise Infrastructure Certification?
TxDb.Dmelanogaster.UCSC.dm3.ensGene
DiseaseModel
6 days ago
Clarasmith
0
0
votes
1
reply
248
views
bcftools norm Equivalent
Rsamtools
written 5 weeks ago by
Dario Strbenac
★ 1.6k
0
votes
1
reply
334
views
Inconsistencies between accessor functions for TxDb databases with selected seqlevels.
TxDb
GenomicFeatures
GenomeInfoDb
written 24 days ago by
dbsgtk
• 0
0
votes
0
replies
14
views
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mouse430a2.db
Cepo
11 days ago
hiraboxesgen
0
3
votes
4
replies
440
views
Issue loading and downloading Bioconductor 3.22 packages after update
VariantAnnotation
Bioconductor
SNPlocs.Hsapiens.dbSNP155.GRCh38
12 days ago • updated 11 days ago
strawberry3
• 0
0
votes
3
replies
209
views
Reproducibility of code in various Bioconductor versions
VariantAnnotation
SNPlocs.Hsapiens.dbSNP155.GRCh38
dbSNP
GenomicRanges
updated 11 days ago by
Gordon Smyth
53k • written 12 days ago by
strawberry3
• 0
1
vote
3
replies
394
views
Question on processing compound protein groups in limpa
limpa
updated 6 hours ago by
brianpeterson1210
• 0 • written 15 days ago by
JKim
• 0
0
votes
1
reply
155
views
Signature for msVIPER from paired bulk RNAseq data
viper
Normalization
pair
updated 14 days ago by
Michael Love
43k • written 17 days ago by
Kryštof
• 0
3
votes
2
replies
248
views
Correct usage of limpa for protein input
limpa
written 17 days ago by
miro165sabo
• 0
0
votes
0
replies
129
views
News:
Registration for EuroBioC2026 is open!
Bioconductor
Conference
16 days ago
laurah ondari
• 0
5
votes
3
replies
294
views
Which preprocessing steps are needed before running limpa?
Normalization
limpa
updated 17 days ago by
Gordon Smyth
53k • written 22 days ago by
miro165sabo
• 0
3
votes
3
replies
295
views
Can sample-level weights be used when analysing GSVA scores in limma?
limma
17 days ago • updated 11 days ago
A.Barden
▴ 20
0
votes
3
replies
282
views
Questions about bacon QC and correction on EWAS results
bacon
written 7 weeks ago by
sup0903
• 0
0
votes
0
replies
14
views
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mouse430a2.db
19 days ago
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0
0
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0
replies
15
views
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mouse430a2.db
19 days ago
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0
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0
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13
views
Spam:
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BSgenome.Hsapiens.UCSC.hg17.masked
19 days ago
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0
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0
replies
11
views
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19 days ago
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16
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mouse430a2.db
19 days ago
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5
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118k
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Unable to create venndiagram using VennDiagram 1.5.1 package
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▴ 10
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26
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20 days ago
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33
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BSgenome.Hsapiens.UCSC.hg17.masked
21 days ago
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23
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mouse430a2.db
21 days ago
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25
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mouse430a2.db
21 days ago
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22 days ago
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36
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22 days ago
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mouse430a2.db
22 days ago
cyber
0
3
votes
1
reply
191
views
Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?
limpa
updated 22 days ago by
Gordon Smyth
53k • written 22 days ago by
miro165sabo
• 0
0
votes
1
reply
101
views
Testing subgroup-specific interactions in DEXSeq
DEXSeq
RNASeqData
Transcriptomics
22 days ago • updated 18 days ago
palanikumars2
• 0
0
votes
0
replies
136
views
Job:
Postdoctoral Associate - Bioinformatics Education - Baylor College of Medicine - Houston, Texas, USA
JobPosting
Outreach
Education
Postdoc
Bioinformatics
23 days ago
Erik Wright
▴ 160
1
vote
3
replies
466
views
Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy names?
silva
decipher
DECIPHER
updated 18 days ago by
Erik Wright
▴ 160 • written 23 days ago by
Korneel
• 0
1
vote
1
reply
244
views
Subsetting data verses contrasts [DESeq2]?
DESeq2
updated 24 days ago by
ATpoint
★ 5.0k • written 25 days ago by
js101
• 0
0
votes
0
replies
114
views
How to start learning RNA sequence analysis with DESeq2
DESeq2
25 days ago
Syed
• 0
1
vote
4
replies
419
views
Bulk RNAseq analysis for
DESeq2
RNASeq
edgeR
limma
26 days ago
Mariami
• 0
0
votes
0
replies
17
views
Spam:
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mouse430a2.db
27 days ago
reeltor537
0
0
votes
5
replies
2.3k
views
DESeq2 contrast cleaning problem
software error
bugs
deseq2
written 10.1 years ago by
john.hu
• 0
0
votes
3
replies
2.5k
views
PCA outliers cleaning
scRNAseq
Pipeline
Seurat
SingleCellExperiment
written 6.3 years ago by
albadrs.93
▴ 10
1
vote
2
replies
3.0k
views
Cleaning GeneSets from GSEA
msigdb
GSEABase
GSVA
written 3.9 years ago by
forlani.luca
• 0
0
votes
2
replies
286
views
soGGi error
soGGi
written 4 weeks ago by
Daniel
• 0
0
votes
1
reply
195
views
Chip Seq Analysis of RNA Polymerase 2
ChIPseeker
ChIPSeqData
ChIPSeq
Bioconductor
written 4 weeks ago by
Gaurav
• 0
46,785 results • Page
1 of 936
Recent ...
Replies
Comment: Inclusion of non-coding portions of transcripts (UTR-regions and introns) within
by
Pat
• 0
Ill be honest, I didnt trust any of these services for a long time. Im a political science major and the pressure around writing is intense…
Comment: Question on processing compound protein groups in limpa
by
brianpeterson1210
• 0
Thank you[,][1] Appreciated! [1]: http://paint3d.org
Comment: Subsetting DDS object for individual conditions over time
by
A
▴ 60
Hi @atpoint Thank you for the quick reply! and this makes sense! I will confirm with a corr to see how the SFs differ but also how DE dif…
Answer: Subsetting DDS object for individual conditions over time
by
ATpoint
★ 5.0k
It would surprise my quite a bit if the size factors would differ notably between subset or not. I would always try to keep the size factor…
Comment: GSEA error
by
Adithi
• 0
Thank you so much. That makes perfect sense to me. I will work on this.
Votes
Answer: RNA Seq using Lrt
Answer: DESeq2 LRT Reduced Formula
Answer: DESeq2: LRT or WALD guidance
Answer: GSEA error
Answer: OrgDb for maize
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