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2
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13
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521
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Trying to use enrichGO
clusterProfiler
GenomicDistributionsData
KEGG
4 weeks ago • updated 28 days ago
fernanda.backsouza
▴ 10
0
votes
0
replies
103
views
Unlocking Potential: NURS FPX Strategies and Insights
levi
NURSFPX
ragene20sttranscriptcluster.db
ssrch
4 weeks ago
vaxahey107
• 0
15
votes
17
replies
1.3k
views
Why p value inconsistent when using different number of pathway score?
limma
4 weeks ago • updated 21 days ago
Chris
▴ 10
0
votes
0
replies
111
views
I am trying to detect alternative splicing.
ASpli
4 weeks ago
Sebashish
• 0
3
votes
2
replies
245
views
Cannabis and KEGGgraph
KEGGREST
GenomicDistributionsData
KEGGgraph
KEGG
updated 4 weeks ago by
Guido Hooiveld
★ 4.0k • written 4 weeks ago by
fernanda.backsouza
▴ 10
1
vote
3
replies
207
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 4 weeks ago by
James W. MacDonald
66k • written 4 weeks ago by
bas_work
▴ 30
2
votes
2
replies
236
views
OrgDb for maize
clusterProfiler
OrgDb
biomaRt
Zea_mays
updated 4 weeks ago by
James W. MacDonald
66k • written 4 weeks ago by
sansan
• 0
1
vote
0
replies
374
views
Tutorial:
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
bioconductor
Install
4 weeks ago
BioinfGuru
▴ 30
4
votes
6
replies
486
views
FilterByExpr low counts with small sample size
edgeR
5 weeks ago • updated 4 weeks ago
Jonathan
▴ 10
0
votes
2
replies
154
views
How to make DGEList and design matrix by edgeR package
DGEList
edgeR
4 weeks ago
prity6459
• 0
0
votes
3
replies
219
views
Finding DEGs by using edgeR
subsettingdata
edgeR
designmatrix
updated 4 weeks ago by
Gordon Smyth
50k • written 4 weeks ago by
prity6459
• 0
5
votes
3
replies
325
views
Log-cpm values from limma
limma
edgeR
RNASeq
updated 13 days ago by
Gordon Smyth
50k • written 5 weeks ago by
Shaimaa Gamal
• 0
0
votes
4
replies
234
views
FGSEA pre-ranked input in increasing order or decreasing
fgsea
4 weeks ago
sropri
• 0
0
votes
3
replies
193
views
Different number of exons in reference genome affects DEXSeq analysis
DEXSeq
updated 22 days ago by
Alejandro Reyes
★ 1.9k • written 4 weeks ago by
Alessia
• 0
0
votes
1
reply
170
views
Adding columns to DEXSeqResults object
DEXSeq
updated 4 weeks ago by
Alejandro Reyes
★ 1.9k • written 5 weeks ago by
Clyde
• 0
0
votes
0
replies
137
views
Warning while loading DEP package
DEP
updated 4 weeks ago by
shepherl
3.9k • written 4 weeks ago by
Namrata
• 0
0
votes
1
reply
160
views
rlog transformation
DESeq2
updated 4 weeks ago by
Michael Love
42k • written 5 weeks ago by
ishij9717
• 0
0
votes
1
reply
133
views
ONT long-read RNA sequencing - data analysis options
DESeq2
LongRead
DEXSeq
IsoformSwitchAnalyzeR
RNASeq
updated 4 weeks ago by
Michael Love
42k • written 5 weeks ago by
09191919
• 0
1
vote
2
replies
764
views
DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
DESeq2
5 weeks ago • updated 26 days ago
Patadù
▴ 10
0
votes
1
reply
151
views
covariate with negative and positive values
DESeq2
updated 4 weeks ago by
Michael Love
42k • written 5 weeks ago by
Brynn
• 0
0
votes
1
reply
171
views
DESEQ2 output gives multiple groups when only 2 groups are present
DESeq2
updated 4 weeks ago by
ATpoint
★ 4.1k • written 5 weeks ago by
quanah.hudson
• 0
1
vote
2
replies
247
views
significant difference of p-values with dream() after updating VariancePartition
variancePartition
5 weeks ago • updated 4 weeks ago
Le
• 0
1
vote
2
replies
183
views
Error in champ.load(): The following specified files do not exist
ChAMP
5 weeks ago • updated 4 weeks ago
Sherin
• 0
0
votes
1
reply
113
views
Input Question for deseq.r
RSeqAn
updated 4 weeks ago by
ATpoint
★ 4.1k • written 5 weeks ago by
Nina
• 0
0
votes
4
replies
273
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
5 weeks ago • updated 4 weeks ago
lonn
• 0
0
votes
7
replies
377
views
Methylation Analysis experiment design using Limma
DNAMethylation
limma
methylationArrayAnalysis
5 weeks ago • updated 4 weeks ago
hortense96
• 0
0
votes
0
replies
96
views
News:
Services
flowBeads
5 weeks ago
creativepeptides2018
• 0
0
votes
0
replies
95
views
Enzyme Engineering
BioTIP
5 weeks ago
bocchemistry
• 0
0
votes
0
replies
99
views
News:
TIDES USA 2024
flowBeads
5 weeks ago
bocsci11
• 0
0
votes
0
replies
109
views
Syntaxt Error in IsorcorrectoR package with Molecule Info File
Syntaxerror
IsoCorrectoR
5 weeks ago
Maliha Tabassum
• 0
0
votes
4
replies
226
views
flowStats Search Error
flowStats
updated 5 weeks ago by
shepherl
3.9k • written 5 weeks ago by
tholmes
• 0
3
votes
18
replies
3.0k
views
News:
List of Deprecated Packages for Bioc3.18
Deprecation
devel
Bioconductor
Devel
11 months ago • updated 5 weeks ago
shepherl
3.9k
0
votes
1
reply
157
views
SNP locus package for mouse?
SNPlocs
packFinder
updated 5 weeks ago by
James W. MacDonald
66k • written 5 weeks ago by
tian.liu0720
• 0
1
vote
2
replies
183
views
geneList error in clusterprofiler
clusterProfiler
GeneSetEnrichment
5 weeks ago
Ana
• 0
0
votes
5
replies
1.7k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 13 months ago by
mauricio.microbiol
• 0
0
votes
1
reply
138
views
what is the sampleFiles
chipseq
updated 5 weeks ago by
James W. MacDonald
66k • written 5 weeks ago by
zhulin
• 0
1
vote
1
reply
218
views
Differentially expressed genes in monocle pseudotime
monocle
updated 5 weeks ago by
Gordon Smyth
50k • written 5 weeks ago by
kthapa
• 0
4
votes
9
replies
499
views
Memory errors using read.bismark?
dmrseq
bsseq
5 weeks ago • updated 15 days ago
Juan Higareda
• 0
3
votes
3
replies
250
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array
BiocGenerics
BiocParallel
Biobase
5 weeks ago
jacques.imbert
• 0
0
votes
1
reply
167
views
The issue with SGSeq_analyzeFeatures() returns errors on BAM files
SGSeq
updated 5 weeks ago by
kamryncole1963
• 0 • written 5 weeks ago by
Sara
• 0
0
votes
3
replies
237
views
Interaction Terms in DESeq2 - Shrinkage
DESeq2
updated 5 weeks ago by
Michael Love
42k • written 5 weeks ago by
andrebolerbarros
▴ 20
0
votes
0
replies
109
views
Diffbind Error in socketConnection
DiffBind
Errorinsocketconnection
SpikeIn
5 weeks ago
Virangika
• 0
0
votes
0
replies
86
views
[ChIPseeker] Unable to perform gene ontology analysis
ChIPseeker
5 weeks ago
Henry
▴ 10
1
vote
2
replies
272
views
How to retrieve detailed regression results from deseq2
DESeq2
6 weeks ago • updated 4 weeks ago
Weiqian
▴ 10
0
votes
4
replies
296
views
DEG with low counts
DESeq2
updated 4 weeks ago by
Michael Love
42k • written 5 weeks ago by
Rajat
• 0
1
vote
2
replies
777
views
GSVA error
GSVA
5 weeks ago
Alex
• 0
2
votes
3
replies
351
views
ComplexHeatmap: add pch to rowAnnotation when the input is a data frame with variable number of continuous columns
ComplexHeatmap
5 weeks ago
daniel.carbajo
• 0
3
votes
3
replies
371
views
permutation test in edgeR
rna-seq
edgeR
updated 4 weeks ago by
Gordon Smyth
50k • written 6 weeks ago by
Netanel
• 0
1
vote
3
replies
371
views
Why is my gene not significantly differentially expressed?
limmaGUI
edgeR
limma
updated 5 weeks ago by
Gordon Smyth
50k • written 6 weeks ago by
Simran
• 0
0
votes
1
reply
154
views
Deseq2 Rlog transformation
DESeq2
updated 5 weeks ago by
ATpoint
★ 4.1k • written 5 weeks ago by
Sahar
• 0
1,748 results • Page
4 of 35
Recent ...
Replies
Comment: Not able to install any Bioconductor 3.18 package [unable to access index]
by
mgdrnl
• 0
I solved the problem installing the latest R version (4.4.0)
Answer: Get gene symbols for a set of hg19 coordinates
by
ATpoint
★ 4.1k
Simply download a GTF file (for example from GENCODE) matching the current genome and/or annotation version you are using in your project a…
Comment: Not able to install any Bioconductor 3.18 package [unable to access index]
by
ATpoint
★ 4.1k
Try the mirror suggestion for now: https://support.bioconductor.org/p/9153734/#9153755
Comment: unable to access bioconductor packages - qvalue installation failed...
by
ATpoint
★ 4.1k
Seems to be a general problem at the moment, can reproduce. The the mirror suggestion here: https://support.bioconductor.org/p/9153734/#915…
Comment: Running ENmix with mouse methylation manifest: readidat error - Error in readman
by
Karosham.Reddy
• 0
Thank you for the suggestion the ENmix version is using is ENmix_1.38.01. I tried your suggested code, R identified the idat files but sti…
Votes
Comment: recount3 problem downloading data from source sra
Not able to install any Bioconductor 3.18 package [unable to access index]
unable to access bioconductor packages - qvalue installation failed...
Not able to install any Bioconductor 3.18 package [unable to access index]
can't open mghp.osn.xsede.org
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