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Views
Votes
1
vote
0
replies
595
views
Fold values in Diffbind
DiffBind
12 months ago
bhandary.8590
▴ 20
1
vote
4
replies
325
views
EDAseq to normalise for both gene-length and GC-content
norma
EDASeq
EDA
Normalization
9 weeks ago
samuel.channon
• 0
1
vote
0
replies
467
views
Gviz : UcscTrack
rtracklayer
UCSC
Gviz
6 months ago
yujin
▴ 10
1
vote
5
replies
375
views
fgsea fork
fgsea
updated 7 weeks ago by
James W. MacDonald
66k • written 7 weeks ago by
yimjohns
• 0
1
vote
1
reply
1.1k
views
Issue with lengthConnectors in EnhancedVolcano
EnhancedVolcano
updated 4 months ago by
mohamad.hajo89
• 0 • written 2.4 years ago by
ikotlar
▴ 10
1
vote
2
replies
829
views
Error: biomaRt has encountered an unexpected server error.
biomaRt
updated 11 months ago by
Mike Smith
★ 6.5k • written 12 months ago by
Yijing
• 0
1
vote
0
replies
254
views
Attempting to import SBML file using R
SBMLR
sbml
rsbm
rsbml
updated 5 months ago by
Michael Love
42k • written 5 months ago by
isasg
▴ 10
1
vote
3
replies
1.9k
views
enrichKEGG results for non-model organism
clusterProfiler
enrichment
KEGG
updated 3 months ago by
cinzia.spagnoli
• 0 • written 23 months ago by
AP
• 0
1
vote
5
replies
888
views
DEXSeq output included non-exist exons
DEXSeq
exon_definition
exon
updated 10 months ago by
Alejandro Reyes
★ 1.9k • written 10 months ago by
zhangpeng1202
• 0
1
vote
4
replies
776
views
Submitting BSgenome package for a new assembly
bsgenome
GenomicFeatures
package
updated 11 months ago by
Hervé Pagès
16k • written 12 months ago by
Manish
• 0
1
vote
0
replies
464
views
Differential abundance analysis of phosphoproteomics data with multiple time points and conditions
Proteomics
DifferentialRegulation
limma
8 months ago
svlachavas
▴ 830
1
vote
2
replies
271
views
How can I create a eigencorplot of pca created from deseq2 object with PCAtools
DESeq2
eigencorplot
PCAtools
9 days ago • updated 6 days ago
BioinfGuru
▴ 30
1
vote
1
reply
1.4k
views
featureCounts running too long
RNAseq123
updated 3 months ago by
difraiadomenico
• 0 • written 3.2 years ago by
demirkalecy
▴ 10
1
vote
2
replies
693
views
Error running run_app('LFQ')
LFQ
DEPpackage
run_app('LFQ')
ShinyApps
DEP
updated 10 months ago by
Ram
▴ 210 • written 11 months ago by
d.kozhevnikova
▴ 10
1
vote
3
replies
1.6k
views
regionCounts() from csaw - object 'fancy_mseq' not found
ATACSeq
regionCounts
csaw
updated 5 months ago by
dineika.chandrananda
• 0 • written 2.1 years ago by
zgraytho88
• 0
1
vote
0
replies
191
views
Rnaseq sample barcode does not match barcode from TCGA Methylation data
TCGAMethylation450k
MethylationArray
TCGAbiolinks
Tcga
TCGAbiolinksGUI.data
12 weeks ago
BioinfoMug
• 0
1
vote
2
replies
356
views
Inconsistent results in DiffBind
DiffBind
5 months ago
Sam
▴ 10
1
vote
1
reply
273
views
plotUMAP and ggplotly Cell IDs Display
scater
updated 3 months ago by
alan.ocallaghan
▴ 160 • written 3 months ago by
Dario Strbenac
★ 1.5k
1
vote
1
reply
406
views
How to read fcs3.2 files
flowCore
updated 5 months ago by
James W. MacDonald
66k • written 5 months ago by
Gabriel
▴ 10
1
vote
1
reply
428
views
How do I select a subset of genes for functional enrichment(GO/KEGG) analysis from WGCNA results?
WGCNA
updated 7 months ago by
tangming2005
▴ 190 • written 7 months ago by
meenae
▴ 10
1
vote
3
replies
902
views
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
clusterProfiler
RNASeq
updated 29 days ago by
Guangchuang Yu
★ 1.2k • written 14 months ago by
ruiqi.li
▴ 10
0
votes
0
replies
118
views
flowDensity on a flowset
flowDensity
6 weeks ago
fredrikwallberg
• 0
0
votes
0
replies
149
views
One error problem occurred caused by data type during using GDCprepare function of TCGAbiolinks to handle TCGAbiolinks BRCA data
GDCRNATools
TCGA
28 days ago • updated 20 days ago
glaciya2018
• 0
0
votes
0
replies
126
views
PCA plot for normalized counts using Diffbind
DiffBind
PCAplot
7 weeks ago
Ankit
▴ 20
0
votes
0
replies
179
views
rpk per cell saved in SCE object.
SingleCellExperiment
4 months ago
JalapenoCornbread
• 0
0
votes
0
replies
99
views
queryDGIdb lexical error for some genes
lexicalerror
rDGIdb
DGIdb
json
6 weeks ago
Dennis
• 0
0
votes
0
replies
13
views
Spam:
7z password remover tool
mgu74bv2cdf
NewWave
hgu133a2.db
10 months ago
roma
0
0
votes
4
replies
332
views
Interactions in batches of varying size with different number of replicates using limma
limma
RNASeq
DifferentialExpression
12 weeks ago
mperalc
• 0
0
votes
0
replies
146
views
Using Granges to find overlapping pairs at exactly 10kb distance
genomeIntervals
GenomicRanges
8 weeks ago
gshweta95
• 0
0
votes
0
replies
155
views
Postdoc
TCGAWorkflow
3 months ago
sameerahmadguru
• 0
0
votes
0
replies
156
views
Multifactor analysis in DiffBind
DiffBind
multifactoranalysis
9 weeks ago
erbrocato
• 0
0
votes
0
replies
180
views
To analyze StringTie data using the isoformSwitchAnalyzeR package
IsoformSwitchAnalyzeR
10 weeks ago
Henry
• 0
0
votes
0
replies
404
views
Recommendation sought for differential exon usage of a single gene
isofor
DEXSeq
DifferentialSplicing
11 months ago
nick_brittain55
• 0
0
votes
0
replies
13
views
Spam:
ost to pst migration software
mgu74bv2cdf
NewWave
hgu133a2.db
10 months ago
roma
0
0
votes
8
replies
407
views
DESeq2 output used for PCA plot on R studio
DESeq2
RSTUDIO
PCAtools
updated 28 days ago by
swbarnes2
★ 1.4k • written 4 weeks ago by
Aaliya
• 0
0
votes
2
replies
374
views
bug in block.plsda from mixOmics?
mixOmics
7 months ago
Lluís Revilla Sancho
▴ 730
0
votes
0
replies
346
views
How to use erccdashboard with erccmix="Single" design
RNASeqData
erccdashboard
8 months ago
adi.rotem
• 0
0
votes
0
replies
391
views
clusterProfiler code to GO enrichment analysis seems to be incomplete
clusterProfiler
DifferentialExpression
7 months ago
nromerov
• 0
0
votes
1
reply
391
views
TxDb.Dmelanogaster.UCSC.dm3.ensGene
TxDb.Dmelanogaster.UCSC.dm3.ensGene
updated 8 months ago by
ATpoint
★ 4.2k • written 8 months ago by
Gh
• 0
0
votes
0
replies
193
views
Parameter bSubControl with no effect in DiffBind dba.count?
bSubControl
ChIPSeq
DiffBind
4 months ago
frueher
• 0
0
votes
1
reply
461
views
Error with IsoformSwitchAnalyzer: analyzePFAM
IsoformSwitchAnalyzeR
11 months ago
Callum
• 0
0
votes
0
replies
165
views
Why output of GSEA is not the same but inversed, when you have the same but inversed input data?
clusterProfiler
gseKEGG
6 weeks ago
andromeda
• 0
0
votes
1
reply
637
views
How to identify the batch informations from the sample ID?
TCGAbiolinks
BatchQC
BatchEffect
updated 9 months ago by
wrab425
• 0 • written 14 months ago by
snijesh
▴ 20
0
votes
1
reply
993
views
ConsensusClusterPlus without figures
clustering
updated 11 weeks ago by
fatmaserrt
• 0 • written 6.5 years ago by
jasonji_19950808
• 0
0
votes
0
replies
267
views
Identifying populations within a FlowSOM tree
FlowSOM
6 months ago
agus_rizzo
• 0
0
votes
0
replies
401
views
Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
9 months ago
ali.oghabian
• 0
0
votes
0
replies
111
views
I am trying to detect alternative splicing.
ASpli
4 weeks ago
Sebashish
• 0
0
votes
0
replies
305
views
Subsite info is possible for more studies
curatedMetagenomicData
12 months ago
Vitor Heidrich
• 0
0
votes
0
replies
143
views
Empty table plot using plotGseaTable()
fgsea
21 days ago • updated 19 days ago
Chris
▴ 10
0
votes
3
replies
280
views
problems updating package
TrajectoryGeometry
3 months ago
michael.shapiro
• 0
408 results • Page
2 of 9
Recent ...
Replies
Comment: Not able to install any Bioconductor 3.18 package [unable to access index]
by
merv
▴ 120
Thanks! I can confirm it is working now - had been broken since sometime yesterday.
Comment: Errors in chromosome annotation-biomaRt
by
landenshanie
▴ 40
Thank you, I ran your exact code and it correct for Xist, however Ddx3y is still wrongly annotated to chr13 and, like your results, Dusp1 i…
Comment: Help with infinite recursion - non-zero exit status in installation of GenomeInf
by
James W. MacDonald
66k
How (why?) are you loading `BiocManager` via namespace instead of loading the library? Try attaching as normal and see if that helps.
Comment: enrichGOgradient color change
by
Javier
• 0
Is it possible in some way to get it done in the same code, something like this (it doesn't work): clusterProfiler::dotplot(ego, showCateg…
Answer: Not able to install any Bioconductor 3.18 package [unable to access index]
by
shepherl
3.9k
An outage was reported at the location we store the Bioconductor archives. We are in process of temporarily activating a different backup …
Votes
Answer: Not able to install any Bioconductor 3.18 package [unable to access index]
Seurat/DESeq2 - single cell RNA-seq differential expression
Seurat to SingleCellExperiment Converting error in MAC
Error when converting Seurat to SingleCellExperiment
Comment: unable to access bioconductor packages - qvalue installation failed...
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