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multipollutant models
statistics Regression r limma
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DEseq2 : Complex design with a mixture of male and female mice
statistics DESeq2
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Further analysis after limma regression output
statistics Epigenetics limma
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FPKM t-test vs DEseq2
DESeq2 statistics rna-seq
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batch effect in EPIC array data
statistics Epigenetics R
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Job: PhD position in Bioinformatics in Jena
Statistics ComputationalBiology Aging MachineLearning
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Results analysis of differential gene expression using DESeq2 package
RnaSeqSampleSize statistics DESeq2
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Statistical test for genomic annotation by ChIPseeker
statistics PeakAnnotation ChIPseeker GuangchuangYu
3.2 years ago arisarkar88 ▴ 40
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Job: Lecturer in Statistics - School of Mathematics and Statistics - University of St Andrews
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3.2 years ago Andy Lynch ▴ 120
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Multiomics Proteomics Cancer Statistics Bioinformatics
3.2 years ago Andy Lynch ▴ 120
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regression analysis for epic array methylation data using limma
limma Epigenetics STATISTICS R
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Reading large file (15GB) in R
R Rstudio Bioconducter statistics
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P adjusted values in Deseq2
DESeq2 Statistics
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News: Ascona Workshop “Biological systems: from first principles to data-​driven modelling and back” 27. 3. - 1. 4. 2022
theory modeling statistics ascona Workshop
4.0 years ago • updated 2.7 years ago Wolfgang Huber ★ 13k
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Job: Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
singlecellRNA-Seq pathview statistics R
4.6 years ago • updated 4.5 years ago Luo Weijun ★ 1.6k
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4.8 years ago Laura • 0
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Job: Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
R statistics pathview singlecellRNA-Seq
4.9 years ago • updated 4.6 years ago Luo Weijun ★ 1.6k
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Re-calculation of Padj (P adjusted value)
statistics Benjamini–Hochberg procedure deseq2
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Job: Post-Doctoral Research Fellow, Cancer Genomics
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5.4 years ago Fred Hutch (Recruiting) ▴ 40
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Job: Postdoctoral Scientist, Statistical Bioinformatics and Proteomics, WEHI Australia
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6.0 years ago • updated 5.8 years ago Gordon Smyth 53k
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Job: Postdoc and PhD student in Bioinformatics/Biostatistics
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6.7 years ago • updated 5.9 years ago Luo Weijun ★ 1.6k
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How to handle batch effect and interaction with experimental variables
deseq2 statistics differential expression
6.0 years ago A • 0
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Exclude interaction terms from the design
deseq2 statistics modelling
updated 6.0 years ago by 43k • written 6.0 years ago by • 0
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How adjusted p-values are calculated in limma
limma r transcriptomics FDR statistics
updated 6.1 years ago by 53k • written 6.1 years ago by ▴ 10
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Proteomics data analysis with DEP no replicates
DEP Proteomics Statistics limma
6.2 years ago tatabox • 0
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Using alternative LFC shrinkage methods for computing p-values in DESeq2
deseq2 apeglm statistics
updated 6.4 years ago by 43k • written 6.4 years ago by • 0
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Efficient resampling in GENESIS or another Bioconductor GWAS package to obtain empirical p-values?
GENESIS GWAS resampling resample statistics
6.7 years ago naglemi ▴ 10
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1.1k
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package for mismatch distribution?
genetics statistics
6.8 years ago myriam.croze07 • 0
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6
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3.7k
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DESeq2 unbalanced sample size
deseq2 bioconductor bioinformatics statistics
updated 2.7 years ago by 43k • written 6.9 years ago by • 0
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Newbie to all of this
bioconductor statistics
7.0 years ago sportwoo • 0
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8.8k
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Voom transformation from counts and normalization to negative values
rnaseq voom limma tcga statistics
updated 7.1 years ago by ★ 7.9k • written 7.1 years ago by ▴ 60
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1.4k
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What to do with microarray probes that catch multiple genes?
affymetrix microarrays microarray probe statistics
updated 7.2 years ago by 68k • written 7.2 years ago by • 0
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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
7.2 years ago Andrea Carenzo • 0
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comparing two GOstats result lists
gostats statistics
updated 7.4 years ago by 68k • written 7.4 years ago by ▴ 30
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Job: Statistical Research Associate
biostatistics statistics sas git assay Job
7.5 years ago Fred Hutch (Recruiting) ▴ 40
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DSS DMLTest Prior Estimate of theta dispersion
DSS dmltest bayesian statistics methylation
7.6 years ago floriandeckert ▴ 30
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1.5k
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News: SCANGEN: Single-cell cancer genomics workshop at ISMB 2018
single cell cancer genomics statistics News
7.6 years ago kieranrcampbell ▴ 50
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1.6k
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Two questions about pathifier package
pathways statistics microarray
7.8 years ago arronar • 0
28
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7
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14k
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Effect of lfcThreshold on p-value in DESeq2
deseq2 rnaseq statistics
updated 2.1 years ago by ▴ 10 • written 8.0 years ago by ▴ 40
2
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4
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1.7k
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Removing batch effect on edgeR when interactons are looked at
rnaseq edger statistics model matrix
updated 8.1 years ago by ★ 13k • written 8.1 years ago by ▴ 90
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1.5k
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Assigning stats to differential peak locations relative to TSS
chipseeker chipseq statistics
8.1 years ago rbronste ▴ 60
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2.0k
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Job: Research Scientist in Biostatistics/Bioinformatics
statistics genetics genomics R Job
8.7 years ago • updated 8.6 years ago Luo Weijun ★ 1.6k
1
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2
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how to perform pre ranked GSEA in R?
r microarray statistics GSEA
updated 8.6 years ago by • 0 • written 10.7 years ago by ▴ 80
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1.6k
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Job: Bioinformaticist, Research Programmer
R genomics statistics Job
8.7 years ago radel • 0
71 results • Page 1 of 2
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Answer: Using DESeq2 for age prediction by ATpoint ★ 5.0k
The package has no such inbuilt function but you are free to use the vst (or any normalized) counts to train a regression model or classifi…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…
Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 20
thank you so much for answering Dr. Love!
Answer: DESeq2 for candidate gene analysis by Michael Love 43k
Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…
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A: Multi-level experiments in Limma
Answer: Should voomWithQualityWeights still be used when the sample-specific weights var
Answer: DESeq2 for candidate gene analysis
DESeq2 for candidate gene analysis
Answer: DESeq2 for candidate gene analysis
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