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0
votes
0
replies
278
views
ChemmineOB avaiable for macOS Binary (arm64)?
ChemmineOB
13 months ago
Simone
• 0
0
votes
2
replies
765
views
installation error for BiocNeighbors package
BiocNeighbors
13 months ago
育
• 0
0
votes
0
replies
574
views
Errors trying to load EPIC v2 data in ChAMP
ChAMP
ChAMPdata
13 months ago
elgomez
• 0
1
vote
3
replies
887
views
makeContrastsDream for Interaction
limma
DifferentialExpression
variancePartition
dream
13 months ago • updated 12 months ago
abadgerw
• 0
0
votes
5
replies
1.2k
views
Merge Replicates vs Mixed Model
limma
DifferentialExpression
variancePartition
dream
13 months ago • updated 12 months ago
abadgerw
• 0
0
votes
0
replies
342
views
ChIP peaks comparison
ChIPSeqData
genomes
ChIPSeq
13 months ago
user_bioinfo
• 0
0
votes
0
replies
605
views
Diffbind: Cut&Run: E-coli spike-in
Normalization
DiffBind
13 months ago
kim
• 0
0
votes
0
replies
406
views
Combining two closely related bacterial annotated genomes to analyze as one pooled group
genomes
RNASeq
13 months ago
brayas13
• 0
0
votes
0
replies
331
views
export processed data from flowploidy
flowPloidy
13 months ago
Zdenek Skala
• 0
0
votes
0
replies
312
views
Filtering Steps for proActiv Analysis
Transcriptomics
proActiv
13 months ago
LuciaNhu
• 0
0
votes
0
replies
402
views
diffbind covariates
DiffBind
ATACSeq
updated 13 months ago by
Michael Love
43k • written 13 months ago by
Alpesh Querer
▴ 220
0
votes
0
replies
326
views
MOFA2: Confidence Intervals // Unvertainty estimates for MOFA model
MOFA2
13 months ago
mario_de_manner
• 0
0
votes
0
replies
378
views
cbind for multiple SpatialExperiment takes so much time
SpatialExperiment
SingleCellExperiment
13 months ago
Ibrahim
• 0
0
votes
0
replies
357
views
DiffBind subset replicates
DiffBind
14 months ago
Haiping
• 0
0
votes
0
replies
450
views
Rsubread - sublong function
pacbio
sublong
Rsubread
14 months ago
thomas.heigl.ibk
• 0
0
votes
0
replies
304
views
when FOLD>0, which group of sampls increased?
BASiCS
14 months ago
Jeffcgen2000
• 0
0
votes
0
replies
302
views
Paired splsda
mixOmics
14 months ago
michelafrancesconi8
• 0
0
votes
0
replies
636
views
Background normalization of Diffbind dba.normalize
Normalization
DiffBind
14 months ago
Young Boqin
• 0
0
votes
0
replies
460
views
DMRcate pcutoff setting
EpicV2
DMRcate
14 months ago
kitzhu
• 0
0
votes
0
replies
458
views
[maser] Why does maser coverage filtering ignore skipping counts of an alt. splicing analysis?
rMATS
alternativesplicing
maser
R
14 months ago
Anke
• 0
1
vote
1
reply
989
views
WGCNA
DEGselection
RNASeqData
WGCNA
updated 14 months ago by
Lluís Revilla Sancho
▴ 760 • written 14 months ago by
Nasim
• 0
0
votes
1
reply
472
views
Unevaluated error in ChIPQC combined with BiocParallel
BiocParallel
ChIPQC
written 14 months ago by
Young Boqin
• 0
2
votes
8
replies
1.9k
views
miRTarRnaseq library
miRNATarget
mirTarRnaSeq
updated 12 months ago by
mercedeh.movassagh
▴ 20 • written 21 months ago by
María Calvo
• 0
0
votes
1
reply
687
views
Setting ylims in bam coverage plot and assigning compound sashimi numbers to overlay plots
Coverage
Gviz
sashimi
updated 7 months ago by
macdonaldfrench7286566
• 0 • written 14 months ago by
Marco
• 0
1
vote
1
reply
707
views
Normalization RNA-seq for multiple plates
Normalization
DESeq2
RNASeqData
edgeR
updated 14 months ago by
ATpoint
★ 5.0k • written 14 months ago by
Pimpa
• 0
1
vote
1
reply
999
views
Convert HGVS Representation back to Reference Genome Coordinates
GA4GHclient
updated 14 months ago by
Vince Schulz
▴ 160 • written 14 months ago by
Dario Strbenac
★ 1.6k
0
votes
0
replies
480
views
Assistance with Bulk RNA-seq Data Analysis Including Random Effect (`duplicateCorrelation` from `limma`)
limma
RNAseq123
14 months ago
tim.meese
• 0
0
votes
1
reply
830
views
BiomaRt - improved access to Ensembl ?
biomaRt
updated 14 months ago by
Mike Smith
★ 6.6k • written 14 months ago by
Abiologist
• 0
0
votes
0
replies
354
views
Deprecated Gates- tailgate
openCyto
14 months ago
ztflaten
• 0
0
votes
0
replies
391
views
Getting error while running GenomicPlot
GenomicPlot
14 months ago
Lucky
• 0
0
votes
0
replies
612
views
WGCNA: Problem with selecting soft threshold
biologicalnetworkanalysis
genomes
RNA-Seq
co-expression
wgcna
14 months ago
Fernanda
• 0
0
votes
0
replies
450
views
package rpx, unable to download any dataset (PRIDE, MassIVE, iProX)
rpx
PXDataset
RforProteomics
14 months ago
Jane_Huang
• 0
0
votes
0
replies
683
views
Generating Boxplots for Gene Expression by CellType in NanoStringGeoMXSet
GeomxTools
SpatialDecon
GeoMxWorkflows
15 months ago
Cinque
• 0
0
votes
0
replies
515
views
Trying to understand basic DiffBind usage
ChIPSeq
DiffBind
15 months ago
Alejandro
• 0
0
votes
0
replies
905
views
modelGeneVar in MulticoreParam: wrong args for environment subassignment
BiocParallel
scran
BiocParall
15 months ago
Lluís Revilla Sancho
▴ 760
0
votes
0
replies
649
views
Mark seleced variables in the x-loading plot
OPLS
genomes
Proteomics
15 months ago
Ragnhild
• 0
0
votes
1
reply
1.4k
views
Issue Installing Biostrings Package: gcc Compilation Errors
Biostrings
packageinstallation
updated 15 months ago by
Aidan
▴ 70 • written 15 months ago by
semra
• 0
0
votes
1
reply
636
views
WGCNA Choosing soft threshold power below R^2 0.8
WGCNA
updated 15 months ago by
Lluís Revilla Sancho
▴ 760 • written 15 months ago by
emilymily77
• 0
0
votes
5
replies
1.2k
views
Rsubread alignment crashes at 35%, valgrind indicates invalid writes
Rsubread
updated 14 months ago by
Yang Liao
▴ 450 • written 15 months ago by
venusian.martin
• 0
0
votes
3
replies
866
views
concentration tables suitable as input for new packages?
Bioconductor
written 15 months ago by
katja.danielzik
• 0
0
votes
1
reply
665
views
Ideal approach to adjust for covariates for WGCNA
WGCNA
wgcna
updated 15 months ago by
James W. MacDonald
68k • written 15 months ago by
bioinformaticssrm2011
• 0
0
votes
5
replies
1.6k
views
ı cant install clusterprofiler on my Ubuntu 20.04.6 LTS
Bioconductor
clusterProfiler
updated 14 months ago by
Lluís Revilla Sancho
▴ 760 • written 15 months ago by
semra
• 0
0
votes
1
reply
627
views
ensemblVEP deprecation and how to reproduce
VariantAnnotation
updated 15 months ago by
Vincent J. Carey, Jr.
6.7k • written 15 months ago by
kmzhou4
• 0
0
votes
0
replies
693
views
Problem merging metadata and feature-table before analysing LEfSe on R
microbiomeDataSets
differential-abundance
15 months ago
샤니쿠마리
• 0
2
votes
2
replies
1.2k
views
fgsea stuck in an infinite loop in the middle of the run
GSEABase
fgsea
msigdb
GeneSetEnrichment
15 months ago
Assa Yeroslaviz
★ 1.5k
0
votes
2
replies
737
views
ReactomeGSA adjustment for confounding variables
BiologicalQuestion
ReactomeGSA
BatchEffect
written 15 months ago by
Shaimaa Gamal
• 0
0
votes
0
replies
493
views
Z-score Interpretation across components
MAST
15 months ago
GJ
• 0
1
vote
2
replies
676
views
Review process for delivering R packages
Bioconductor
15 months ago
XFWu
• 0
0
votes
0
replies
550
views
BioCAsia 2024 Abstract Deadline - August 26th
BioCAsia2024
Community
Conference
Bioconductor
15 months ago
Maria Doyle
▴ 110
0
votes
1
reply
740
views
DiffBind - observation that the default union overlap is actually a gap of 1 bp
DiffBind
16 months ago • updated 10 months ago
Ian D.
▴ 70
1,000 results • Page
3 of 20
Recent ...
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Comment: Bioinformatician at the Lausanne University Hospital
by
eja.ger.m
• 0
For individuals looking to improve communication and collaboration in demanding medical or research environments like the Genetic Medicine …
Answer: NUPOP usage
by
shepherl
4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker?
by
fnfgame
• 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes
by
Erik Wright
▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment
by
Michael Love
43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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