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Suggesting changing the "reply-to" field to the mailing list address.
updated 10 months ago by 4.2k • written 16.4 years ago by ▴ 950
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Differential variance analysis - can i use deseq2
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updated 10 months ago by 43k • written 10 months ago by • 0
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UniProt.ws query for single UniRef90 ID takes several minutes
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updated 10 months ago by 68k • written 10 months ago by • 0
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batch effect removal for agilent microarray data
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10 months ago gaye.yilmaz • 0
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Automatically install dependencies
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updated 10 months ago by 4.2k • written 10 months ago by • 0
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SingleR with multiple single cell references
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10 months ago • updated 8 months ago maltethodberg ▴ 180
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420
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Help with mouse cell type annotation
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10 months ago Muhammad • 0
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1
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To count or not to count multi-overlapping reads?
RNA-Seq featureCounts Rsubread
updated 10 months ago by 53k • written 10 months ago by ▴ 80
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226
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Unable to restore chromosome sequence lengths or other metadata in BSgenome.Mfascicularis.NCBI.6.0
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10 months ago Genevieve • 0
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2
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Weird p-values using DESeq2?
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updated 10 months ago by ★ 5.0k • written 10 months ago by • 0
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10 months ago Wolfgang Huber ★ 13k
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Generating Biphasic Curves in Offline GR Metrics Package
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10 months ago Jasmitha • 0
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5
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Overcoming confounding in batch effect correction
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10 months ago bbao ▴ 10
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Store Matrix in DataFrame Cell
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10 months ago Dario Strbenac ★ 1.6k
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For some reason I can't update BiocManager to 3.20
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updated 10 months ago by 4.2k • written 10 months ago by • 0
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10 months ago Abu 0
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10 months ago Abu 0
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10 months ago Abu 0
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10 months ago Abu 0
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10 months ago Abu 0
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GOTHiC BubbleTree PANR
10 months ago Abu 0
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1
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776
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KEGG GSEA using Clusterprofiler - ncbi-geneid missing?
clusterProfiler KEGG
10 months ago Jessica • 0
0
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0
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508
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10 months ago Maria Doyle ▴ 110
0
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1
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425
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Comparing Mock vs Infected in WT and Knockout Cells
DESeq2 DifferentialExpression DifferentialRegulation RNASeq GeneSetEnrichment
updated 10 months ago by 43k • written 10 months ago by • 0
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1
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792
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In WGCNA, what networkType should be used in pickSoftThreshold for a Signed Nowick TomType
WGCNA pickSoftThreshold SignedNowick
updated 10 months ago by ★ 5.0k • written 10 months ago by • 0
0
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1
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445
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Error: lexical error: invalid char in json text (alevin-seurat)
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updated 10 months ago by ★ 5.0k • written 10 months ago by • 0
0
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0
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231
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Help with MetagenomeSeq, understanding the 75th quantile
metagenomeSeq cumulativesumscaling
updated 10 months ago by 68k • written 10 months ago by • 0
0
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0
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361
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Methylation data - different probes are classified differently based on transcript? (Illumina methylation arrays, using minfi)
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10 months ago charlie.wright • 0
0
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3
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848
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DESeq2 adujsted p-value cutoff seemingly not working
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updated 10 months ago by • 0 • written 10 months ago by • 0
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4
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712
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updated 10 months ago by 21k • written 10 months ago by • 0
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2
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Issue with assigning transcript IDs to reads when using summarizeOverlaps(mode = IntersectionNotEmpty)
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10 months ago SofieK • 0
0
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2
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547
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Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes))
methylationArrayAnalysis Normalization Epigenetics MethylationArrayData
10 months ago a.alkema • 0
0
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2
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932
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accounting for vs. removing batch effects with DESeq2 in RNAseq analysis
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updated 10 months ago by • 0 • written 10 months ago by • 0
0
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3
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624
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displaying the differential expression with deseq2 over 4X2 samples with the individual changes in gene expression per sample
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updated 10 months ago by • 0 • written 10 months ago by • 0
0
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3
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907
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How to compare expression levels of genes between scRNAseq and bulkRNAseq?
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updated 10 months ago by • 0 • written 11 months ago by ▴ 10
5
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5
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2.1k
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Unused arguments error without used arguments in GSVA?
GSVA
updated 9 months ago by • 0 • written 10 months ago by • 0
0
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1
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1.3k
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Using genomicRanges / plyranges to calculate score of peaks within intervals
plyranges GenomicRanges
updated 10 months ago by 43k • written 4.6 years ago by • 0
1
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1
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2.0k
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Reducing and aggregating GRanges with gaps using plyranges
GenomicRanges plyranges
updated 10 months ago by 43k • written 5.2 years ago by • 0
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3
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628
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plyranges: find exact GRanges match keeping metadata columns
plyranges
updated 10 months ago by 43k • written 10 months ago by • 0
0
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0
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401
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News: Mass Spectrometry and Proteomics with R/Bioconductor course
cadd.v1.6.hg38
10 months ago info ▴ 10
0
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1
reply
431
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Restricting differential binding analysis to only TSS-proximal regions
ChIP csaw
updated 10 months ago by ★ 29k • written 10 months ago by • 0
0
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0
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297
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Batch Correction while implementing QSEA package
qsea MEDIPS MEDIPSData DNAMethylation
10 months ago User3088 • 0
0
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0
replies
301
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10 months ago Maria Doyle ▴ 110
0
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1
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468
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building samplesheet and plot profile
DiffBind
10 months ago yf • 0
0
votes
0
replies
210
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DBT JRF & PhD Scholar
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10 months ago Manisha • 0
0
votes
1
reply
427
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I am having issues with bowtie2_build
genomes bowtiew Index
updated 10 months ago by 68k • written 10 months ago by • 0
0
votes
1
reply
678
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DEG analysis across multiple timepoints, treatments and tissues
DifferentialExpression RNASeq DESeq2
updated 10 months ago by 43k • written 10 months ago by • 0
0
votes
0
replies
367
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My DEXSeqDataSetFromSE is returning an Error, but all of my checks to seem to indicate that this error is not present
DifferentialSplicing RNASeqData DEXSeq
10 months ago cftattersfield • 0
1
vote
0
replies
613
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News: Bioconductor Course, Kenya 2025: Applications Open!
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10 months ago Maria Doyle ▴ 110
46,700 results • Page 9 of 934
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Comment: Bioinformatician at the Lausanne University Hospital by TikTsokaasocissalpc • 0
The Random Word Generator in Italian is a useful tool for generating ideas and exploring new approaches, much like the innovative research …
Comment: DECIPHER DesignProbes unable to design FISH-probes by TikTsokaasocissalpc • 0
If you want to share your research progress and microbiome discoveries with colleagues or friends, [snaptroid android][1] download free mak…
Answer: Limma-voom sample weights and impact on DEG numbers by Gordon Smyth 53k
I recommend that you always use voomLmFit() instead of the earlier voom() or voomWithQualityWeights() functions. Personally, I would use sa…
Answer: wgcna module preseravtion taking too long? by ATpoint ★ 5.0k
WGCNA is not a Bioconductor package, you won't get an answer here. Consider biostars.org or the r/bioinformatics reddit. Note that 10 sampl…
Answer: Question about RE-agnostic mode for intact Hi-C and Micro-C normalization(HiCDCP by victor04052024 • 0
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Limma-voom sample weights and impact on DEG numbers
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Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
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