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Views
Votes
0
votes
0
replies
127
views
The graphical interface of FELLA doesn't work
FELLA
11 weeks ago
yuhang
• 0
0
votes
0
replies
149
views
DEXSeq plot error
DEXSeq
DEXSeqNAvalues
DEXseq
11 weeks ago
jean-christophe.helbling
• 0
0
votes
0
replies
182
views
To analyze StringTie data using the isoformSwitchAnalyzeR package
IsoformSwitchAnalyzeR
11 weeks ago
Henry
• 0
0
votes
1
reply
268
views
Rcpp compilation error
Release
Rcpp
updated 11 weeks ago by
ATpoint
★ 4.2k • written 11 weeks ago by
Robert K. Bradley
▴ 40
0
votes
0
replies
208
views
Rain error: invalid annotation of time points
rain
11 weeks ago
mpuli011
• 0
0
votes
0
replies
236
views
Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
minfi
minfiDataEPIC
11 weeks ago
Felix
• 0
0
votes
0
replies
182
views
TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray
normalize450K
TCGAbiolinks
Normalization
MethylationArrayData
12 weeks ago • updated 10 weeks ago
Giovanni Calice
▴ 160
0
votes
0
replies
270
views
Error: grouping factors must have > 1 sampled level
Mast
mastR
MAST
updated 12 weeks ago by
James W. MacDonald
66k • written 12 weeks ago by
Andrew
• 0
0
votes
0
replies
165
views
Feature Counts -R XS Read Assignment Tag
FeatureCounts
Rsubread
12 weeks ago
chris2.a.white
• 0
0
votes
0
replies
191
views
Could SGSeq utilizes "ts" tag produced from minimap2 other than "XS" tag?
XS-tag
SplicedAlignment
SGSeq
minimap2
12 weeks ago
jk
• 0
0
votes
0
replies
172
views
Can I combine collinear variables into a single value
BatchEffect
limma
12 weeks ago
Harrsha
• 0
0
votes
0
replies
279
views
Error in set(x, j = name, value = value) : Supplied 52 items to be assigned to 55 items of column 'locus'. If you wish to 'recycle' the RHS please…
ASpli
12 weeks ago
vipul14
• 0
0
votes
0
replies
137
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R
ATACseqQC
12 weeks ago
danalvoronov
▴ 10
0
votes
0
replies
162
views
lfcSE
RGSEA
3 months ago
Gordon
• 0
0
votes
4
replies
345
views
Interactions in batches of varying size with different number of replicates using limma
limma
RNASeq
DifferentialExpression
3 months ago • updated 12 weeks ago
mperalc
• 0
1
vote
0
replies
193
views
Rnaseq sample barcode does not match barcode from TCGA Methylation data
TCGAMethylation450k
MethylationArray
TCGAbiolinks
Tcga
TCGAbiolinksGUI.data
3 months ago
BioinfoMug
• 0
0
votes
0
replies
181
views
Unclear exon-exon connection after RSubjunc() usage
IGV
Rsubjunc
Rsubread
3 months ago
thomas.heigl.ibk
• 0
0
votes
1
reply
271
views
How to select cells that represents more accurately a cluster in a scRNA-seq dataset?
scRNAseq
updated 3 months ago by
ATpoint
★ 4.2k • written 3 months ago by
sodiogoes
• 0
0
votes
6
replies
837
views
StringDB: Cannot finish their tutorial because of an error
STRINGdb
updated 11 weeks ago by
qianyi13
• 0 • written 3 months ago by
Pavel
• 0
0
votes
2
replies
347
views
problem in installing the new version of bioconductor
ANCOMBC
updated 3 months ago by
shepherl
3.9k • written 3 months ago by
Maryam
• 0
0
votes
0
replies
185
views
Comparing the effects of a condition over time in two seperate tissues
MAST
3 months ago
Dillon
• 0
0
votes
4
replies
457
views
Installation problem of rtracklayer on Bioconductor version 3.19
newpackage
rtracklayer
updated 3 months ago by
shepherl
3.9k • written 3 months ago by
Lucille
• 0
0
votes
3
replies
290
views
problems updating package
TrajectoryGeometry
3 months ago
michael.shapiro
• 0
0
votes
0
replies
242
views
how to solve this error?
ChAMPdata
ChAMP
3 months ago
Meghana
• 0
1
vote
1
reply
289
views
FCS3.2 reading
flowWorkspace
flowCore
CytoML
updated 9 weeks ago by
SamGG
▴ 350 • written 3 months ago by
jarod
▴ 30
0
votes
0
replies
192
views
flowAI: flow rare check in R vs FlowJo
flowAI
3 months ago
Olena
• 0
0
votes
0
replies
219
views
ISO statistical test for obs-exp A,T,C,G counts by genomic range/position
GenomicRanges
3 months ago
mat149
▴ 70
0
votes
0
replies
192
views
GDC slides download
TCGAbiolinks
3 months ago
jain72744
• 0
0
votes
0
replies
252
views
Differential expression analysis between different species
DEG
RNASeqData
DifferentialExpression
SCBN
RNASeq
3 months ago
Abril
• 0
0
votes
4
replies
334
views
I need to calculate the survival rate of TCGA databases
TCGAbiolinks
Survival
updated 3 months ago by
Lluís Revilla Sancho
▴ 730 • written 3 months ago by
tirordep
• 0
0
votes
1
reply
257
views
"Counts" in enrichGO
GSEABase
updated 3 months ago by
Tyler Sagendorf
▴ 10 • written 3 months ago by
Matthew
• 0
0
votes
1
reply
339
views
WGCNA | plotDendroAndColors ERROR
plotDendroAndColor
WGCNA
updated 3 months ago by
ATpoint
★ 4.2k • written 3 months ago by
Priya
• 0
2
votes
15
replies
754
views
Problems with enrichGO
clusterProfiler
enrichGO
updated 3 months ago by
Michael Love
42k • written 3 months ago by
cinzia.spagnoli
• 0
0
votes
0
replies
215
views
Best method for annotating distal peaks
ChIPSeq
annotation
ChIPpeakAnno
3 months ago
nilanjanamani88
• 0
1
vote
1
reply
253
views
502 error biomaRt getLDS()
ensembldb
biomaRt
updated 3 months ago by
Robin
• 0 • written 3 months ago by
Pez
▴ 10
0
votes
3
replies
486
views
Unable to install clusterProfiler
clusterProfiler
updated 3 months ago by
Perry
• 0 • written 3 months ago by
harsh
• 0
0
votes
0
replies
179
views
rain: Error in peakl[[x]] : subscript out of bounds
rain
3 months ago
mata
• 0
1
vote
5
replies
525
views
BiomaRt download data error
biomaRt
updated 3 months ago by
Mike Smith
★ 6.5k • written 3 months ago by
Max Bone
• 0
0
votes
0
replies
203
views
Recount3 error downloading data
recount3
recount
3 months ago
Max Bone
• 0
0
votes
0
replies
152
views
addcrispraiscores - crisprverse not working
crisprDesign
3 months ago
jimjacob08
• 0
0
votes
0
replies
155
views
Error reading bam files with getCounts after updating R
chromVAR
chrom
updated 3 months ago by
James W. MacDonald
66k • written 3 months ago by
tsourkas
• 0
0
votes
1
reply
201
views
Sample-specific methylation values using QSEA
DNAMethylation
cfMeDIP-seq
cfDNA
qsea
updated 10 weeks ago by
Simon Pearce
• 0 • written 3 months ago by
User3088
• 0
1
vote
4
replies
556
views
EPIC or EPICv2 demo data of brain samples. FlowSorted.DLPFC.EPIC Availability?
DNAMethylation
MethylationArray
methylationArrayAnalysis
illumina
3 months ago
mikat
• 0
0
votes
0
replies
158
views
What is the significance of DMR in DMRcate
DMRcate
3 months ago
chuanjiao6
• 0
0
votes
0
replies
136
views
HiCDCPlus differential interaction error
HiCDCPlus
3 months ago
Irene
• 0
0
votes
0
replies
185
views
champ.load() from .idat files of GDC/TCGA dataset
TCGAbiolinks
ChAMP
3 months ago
Thalita
• 0
1
vote
1
reply
422
views
RSubread cellCounts - memory mapping error with NovoSeq but not NextSeq output
Rsubread
updated 12 weeks ago by
Yang Liao
▴ 380 • written 3 months ago by
Joe Marturano
▴ 10
0
votes
0
replies
159
views
Postdoc
TCGAWorkflow
3 months ago
sameerahmadguru
• 0
2
votes
6
replies
1.2k
views
Looking for documentation about the use of "split = .sign" in enrichplot's dotplot
enrichplot
4 months ago • updated 3 months ago
Tobias
• 0
1
vote
1
reply
277
views
plotUMAP and ggplotly Cell IDs Display
scater
updated 4 months ago by
alan.ocallaghan
▴ 160 • written 4 months ago by
Dario Strbenac
★ 1.5k
1,000 results • Page
3 of 20
Recent ...
Replies
Comment: Cannot install oligo on Fedora
by
Guido Hooiveld
★ 4.0k
Thanks for all suggestions and getting to the bottom of this! Unfortunately, fixing C code goes way above my skill level, so I cannot contr…
Comment: Cannot install oligo on Fedora
by
James W. MacDonald
66k
I think the solution is for the C code in `oligo` to be updated to work with more modern versions of `zlib`. The `zlibbioc` package is real…
Comment: Error in gseDO function
by
Guido Hooiveld
★ 4.0k
I don't fully understand what you are asking... Yet, in my opinion it doesn't make sense to use the results of only 12 genes for ORA (nor G…
Comment: Counter-directional LFC shrinkage
by
ATpoint
★ 4.2k
Is this RNA-seq? The unshrunken MA-plot looks very odd and indicates that normalization is completely offset.
Answer: ChAMP not available for bioconductor 3.19
by
shepherl
3.9k
See https://support.bioconductor.org/p/9158324/#9158336 . We have reached out to goseq to fix the package; we have a community member …
Votes
A: DESeq2: add annotations (from data frame) to DESeqDataSet
Answer: Error in gseDO function
Comment: what the test method for enrichGO in clusterProfiler?
A: Comparison between two different group's pathway analysis results
DiffBind Batch Effect
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