0
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0
replies
278
views
ChemmineOB avaiable for macOS Binary (arm64)?
ChemmineOB
13 months ago Simone • 0
0
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2
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765
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installation error for BiocNeighbors package
BiocNeighbors
13 months ago 育 • 0
0
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0
replies
574
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Errors trying to load EPIC v2 data in ChAMP
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13 months ago elgomez • 0
1
vote
3
replies
887
views
makeContrastsDream for Interaction
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13 months ago • updated 12 months ago abadgerw • 0
0
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5
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1.2k
views
Merge Replicates vs Mixed Model
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13 months ago • updated 12 months ago abadgerw • 0
0
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0
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342
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ChIP peaks comparison
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13 months ago user_bioinfo • 0
0
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0
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605
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Diffbind: Cut&Run: E-coli spike-in
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13 months ago kim • 0
0
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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
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0
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331
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export processed data from flowploidy
flowPloidy
13 months ago Zdenek Skala • 0
0
votes
0
replies
312
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Filtering Steps for proActiv Analysis
Transcriptomics proActiv
13 months ago LuciaNhu • 0
0
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0
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402
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diffbind covariates
DiffBind ATACSeq
updated 13 months ago by 43k • written 13 months ago by ▴ 220
0
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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
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cbind for multiple SpatialExperiment takes so much time
SpatialExperiment SingleCellExperiment
13 months ago Ibrahim • 0
0
votes
0
replies
357
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DiffBind subset replicates
DiffBind
14 months ago Haiping • 0
0
votes
0
replies
450
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Rsubread - sublong function
pacbio sublong Rsubread
14 months ago thomas.heigl.ibk • 0
0
votes
0
replies
304
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when FOLD>0, which group of sampls increased?
BASiCS
14 months ago Jeffcgen2000 • 0
0
votes
0
replies
302
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Paired splsda
mixOmics
14 months ago michelafrancesconi8 • 0
0
votes
0
replies
636
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Background normalization of Diffbind dba.normalize
Normalization DiffBind
14 months ago Young Boqin • 0
0
votes
0
replies
460
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DMRcate pcutoff setting
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14 months ago kitzhu • 0
0
votes
0
replies
458
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[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 ▴ 760 • written 14 months ago by • 0
0
votes
1
reply
472
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Unevaluated error in ChIPQC combined with BiocParallel
BiocParallel ChIPQC
written 14 months ago by • 0
2
votes
8
replies
1.9k
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miRTarRnaseq library
miRNATarget mirTarRnaSeq
updated 12 months ago by ▴ 20 • written 21 months ago by • 0
0
votes
1
reply
687
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Setting ylims in bam coverage plot and assigning compound sashimi numbers to overlay plots
Coverage Gviz sashimi
updated 7 months ago by • 0 • written 14 months ago by • 0
1
vote
1
reply
707
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Normalization RNA-seq for multiple plates
Normalization DESeq2 RNASeqData edgeR
updated 14 months ago by ★ 5.0k • written 14 months ago by • 0
1
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1
reply
999
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Convert HGVS Representation back to Reference Genome Coordinates
GA4GHclient
updated 14 months ago by ▴ 160 • written 14 months ago by ★ 1.6k
0
votes
0
replies
480
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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 ★ 6.6k • written 14 months ago by • 0
0
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0
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354
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Deprecated Gates- tailgate
openCyto
14 months ago ztflaten • 0
0
votes
0
replies
391
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Getting error while running GenomicPlot
GenomicPlot
14 months ago Lucky • 0
0
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0
replies
612
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WGCNA: Problem with selecting soft threshold
biologicalnetworkanalysis genomes RNA-Seq co-expression wgcna
14 months ago Fernanda • 0
0
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0
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450
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package rpx, unable to download any dataset (PRIDE, MassIVE, iProX)
rpx PXDataset RforProteomics
14 months ago Jane_Huang • 0
0
votes
0
replies
683
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Generating Boxplots for Gene Expression by CellType in NanoStringGeoMXSet
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15 months ago Cinque • 0
0
votes
0
replies
515
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Trying to understand basic DiffBind usage
ChIPSeq DiffBind
15 months ago Alejandro • 0
0
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0
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905
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modelGeneVar in MulticoreParam: wrong args for environment subassignment
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15 months ago Lluís Revilla Sancho ▴ 760
0
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0
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649
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Mark seleced variables in the x-loading plot
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15 months ago Ragnhild • 0
0
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1
reply
1.4k
views
Issue Installing Biostrings Package: gcc Compilation Errors
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updated 15 months ago by ▴ 70 • written 15 months ago by • 0
0
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1
reply
636
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WGCNA Choosing soft threshold power below R^2 0.8
WGCNA
updated 15 months ago by ▴ 760 • written 15 months ago by • 0
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5
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1.2k
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Rsubread alignment crashes at 35%, valgrind indicates invalid writes
Rsubread
updated 14 months ago by ▴ 450 • written 15 months ago by • 0
0
votes
3
replies
866
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concentration tables suitable as input for new packages?
Bioconductor
written 15 months ago by • 0
0
votes
1
reply
665
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Ideal approach to adjust for covariates for WGCNA
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updated 15 months ago by 68k • written 15 months ago by • 0
0
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5
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1.6k
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ı cant install clusterprofiler on my Ubuntu 20.04.6 LTS
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updated 14 months ago by ▴ 760 • written 15 months ago by • 0
0
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1
reply
627
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ensemblVEP deprecation and how to reproduce
VariantAnnotation
updated 15 months ago by 6.7k • written 15 months ago by • 0
0
votes
0
replies
693
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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
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ReactomeGSA adjustment for confounding variables
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written 15 months ago by • 0
0
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0
replies
493
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Z-score Interpretation across components
MAST
15 months ago GJ • 0
1
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2
replies
676
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Review process for delivering R packages
Bioconductor
15 months ago XFWu • 0
0
votes
0
replies
550
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BioCAsia 2024 Abstract Deadline - August 26th
BioCAsia2024 Community Conference Bioconductor
15 months ago Maria Doyle ▴ 110
0
votes
1
reply
740
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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
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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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