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P adjusted values in Deseq2
DESeq2 Statistics
4 days ago • updated 1 day ago Jesus • 0
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37
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26 days ago Laura • 0
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7 weeks ago • updated 6 weeks ago Luo Weijun ♦ 1.5k
1
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98
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Re-calculation of Padj (P adjusted value)
statistics Benjamini–Hochberg procedure deseq2
3 months ago Matan G. • 30 • updated 3 months ago Michael Love 31k
2
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92
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Job: Multiple open positions in biomedical statistics at Eurac Research, Italy
epidemiology statistics bioinformatics Job
3 months ago Johannes Rainer ♦ 1.7k
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5 months ago • updated 10 weeks ago whduke • 0
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2.5 years ago • updated 7 weeks ago Luo Weijun ♦ 1.5k
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7 months ago Fred Hutch (Recruiting) • 40
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14 months ago • updated 12 months ago Gordon Smyth 41k
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23 months ago • updated 13 months ago Luo Weijun ♦ 1.5k
0
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87
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How to handle batch effect and interaction with experimental variables
deseq2 statistics differential expression
14 months ago A • 0
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1
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143
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Exclude interaction terms from the design
deseq2 statistics modelling
15 months ago polyptwo • 0 • updated 15 months ago Michael Love 31k
2
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205
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How adjusted p-values are calculated in limma
limma r transcriptomics FDR statistics
15 months ago Wuschel • 10 • updated 15 months ago Gordon Smyth 41k
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164
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Proteomics data analysis with DEP no replicates
DEP Proteomics Statistics limma
17 months ago tatabox • 0
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250
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Using alternative LFC shrinkage methods for computing p-values in DESeq2
deseq2 apeglm statistics
19 months ago zefrieira • 0 • updated 19 months ago Michael Love 31k
0
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227
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Efficient resampling in GENESIS or another Bioconductor GWAS package to obtain empirical p-values?
GENESIS GWAS resampling resample statistics
23 months ago naglemi • 10
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189
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package for mismatch distribution?
genetics statistics
24 months ago myriam.croze07 • 0
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4
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626
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DESeq2 unbalanced sample size
deseq2 bioconductor bioinformatics statistics
2.1 years ago casikecola • 0 • updated 2.1 years ago Michael Love 31k
1
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338
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Newbie to all of this
bioconductor statistics
2.3 years ago sportwoo • 0
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2.2k
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Voom transformation from counts and normalization to negative values
rnaseq voom limma tcga statistics
2.3 years ago Beginner • 50 • updated 2.3 years ago Ryan C. Thompson 7.6k
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305
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What to do with microarray probes that catch multiple genes?
affymetrix microarrays microarray probe statistics
2.4 years ago ravelarvargas • 0 • updated 2.4 years ago James W. MacDonald 55k
1
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404
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Do the gene set statistics of the ROAST paper correspond to those implemented in the .roastEffects R function?
limma roast statistics source code gene set testing
2.4 years ago Andrea Carenzo • 0
0
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350
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comparing two GOstats result lists
gostats statistics
2.6 years ago sven.schenk • 10 • updated 2.6 years ago James W. MacDonald 55k
1
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439
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2.7 years ago Fred Hutch (Recruiting) • 40
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376
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DSS DMLTest Prior Estimate of theta dispersion
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2.8 years ago floriandeckert • 30
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0
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405
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News: SCANGEN: Single-cell cancer genomics workshop at ISMB 2018
single cell cancer genomics statistics News
2.8 years ago kieranrcampbell • 30
0
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0
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406
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Two questions about pathifier package
pathways statistics microarray
3.0 years ago arronar • 0
10
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3.2k
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Effect of lfcThreshold on p-value in DESeq2
deseq2 rnaseq statistics
3.3 years ago Russ Fraser • 10 • updated 3.3 years ago James W. MacDonald 55k
2
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4
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436
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Removing batch effect on edgeR when interactons are looked at
rnaseq edger statistics model matrix
3.3 years ago David Rengel • 70 • updated 3.3 years ago Steve Lianoglou 13k
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515
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Assigning stats to differential peak locations relative to TSS
chipseeker chipseq statistics
3.3 years ago rbronste • 60
0
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778
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Job: Research Scientist in Biostatistics/Bioinformatics
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3.9 years ago • updated 3.8 years ago Luo Weijun ♦ 1.5k
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1.2k
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how to perform pre ranked GSEA in R?
r microarray statistics GSEA
5.9 years ago Nemo • 80 • updated 3.9 years ago predeus • 0
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691
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Job: Bioinformaticist, Research Programmer
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3.9 years ago radel • 0
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the statistical test that DESeq2 use
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3.9 years ago elhamdallalbashi • 0 • updated 3.9 years ago Ryan C. Thompson 7.6k
2
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2
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3.4k
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edgeR: How is FDR calculated for logFC? (False Discovery Rate)
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4.1 years ago jol.espinoz • 30
1
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869
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Job: PhD Positions in Computational Cancer Research
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4.1 years ago Bernd Fischer • 540
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0
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587
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Job: Seeking computational biologists with expertise in RNA-Seq and/or statistics at Immuneering Corporation, Cambridge MA and New York NY
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4.2 years ago mmartin • 20
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657
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Job: Postdoc in Biostatistics/Bioinformatics at UNC Charlotte, NC, USA
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4.5 years ago • updated 4.3 years ago Luo Weijun ♦ 1.5k
0
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1.2k
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News: Workshop on Statistical Challenges in Single-Cell Biology, April 30 to May 5, 2017, at Villa Monte Verita, Ascona
workshop statistics single-cell News
4.4 years ago Wolfgang Huber 13k
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1.1k
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Job: Bioinformatics Programmer (Statistician) at University of California at San Francisco
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4.8 years ago • updated 4.5 years ago clif.duhn • 0
0
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3.0k
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10 multiple comparisons in DESeq2
deseq2 rnaseq statistics
4.6 years ago kissmatee • 0 • updated 4.6 years ago Michael Love 31k
2
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3
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761
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RNAseq outlier is a critical sample
rnaseq outlier statistics batch effect
4.6 years ago grastalt27 • 0 • updated 4.6 years ago Gordon Smyth 41k
2
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1
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462
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limma for gene expression analysis with big and unbalanced sample size
limma microarray statistics
4.6 years ago tati6406 • 0 • updated 4.6 years ago Aaron Lun ♦ 26k
7
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1.5k
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Differing topTable() results with Limma with and without specifying coefficient
limma microarray statistics
4.7 years ago krr • 0 • updated 4.7 years ago Gordon Smyth 41k
19
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5.1k
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Confidence intervals on edgeR logFC
edgeR statistics confidence interval
6.3 years ago ri.lars • 40 • updated 4.8 years ago nwvidal • 0
0
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2
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735
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Compute test-score statistical significance using control-scores from shuffled population
statistics hypotheses R
4.8 years ago Bade • 310
0
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0
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970
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Job: Computational Biologist (Genome Statistical Analyst) position in CRUK Manchester Institute, UK
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4.9 years ago Hui Sun Leong • 10
4
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7.6k
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how DESeq calculates p-value ?
deseq differential gene expression statistics p-value
4.9 years ago Giard • 10 • updated 4.9 years ago Ryan C. Thompson 7.6k
0
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4
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1.4k
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XCMS for targeted metabolomic/lipidomics/proteomics
xcms metabolomics lipidomics statistics
5.0 years ago Titan • 0
55 results • Page 1 of 2
Recent ...
Replies
Comment: How to use EnrichGo of Cluster Profiler by Lluís Revilla Sancho • 610
Could you share what is the output of `head(gene)`?
Comment: DESeq2 Error: ncol(countData) == nrow(colData) is not TRUE by Pedram • 0
Hello Michael I could not make the same matrix although I did what you said
Comment: Replace a specific nucleotide sequence, at a specific position, with another in by Konstantinos Yeles • 40
Hello @Benjamin-24571 for your example, I can suggest you this code: Read <- c("1","2","3","4") Sequences <- c("ACACCCACG", "AA…
Comment: CHIP Seq Analysis by DiffBind Package by shrinka.genetics • 0
Hello Thanks for your reply. I changed my file format and now it ran. It gave one plot also. All file s are in same directory. No…
Answer: Installing Bioconductor packages in Docker by Konstantinos Yeles • 40
Hello, @adklts-21974 My way to do the installation of packages in a docker is like this: FROM bioconductor/bioconductor_docker…
Votes
A: Interpreting the results from lfcShrink() with apeglm in DESeq2
A: single-cells RNA-seq analysis by MAST with unbalanced group size
single-cells RNA-seq analysis by MAST with unbalanced group size
A: single-cells RNA-seq analysis by MAST with unbalanced group size
A: DESeq2 1.20.0 lfcshrink function
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