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1
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58
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normalization using Deseq2
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0
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118
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updated 12 days ago by ★ 4.1k • written 12 days ago by ▴ 10
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updated 6 days ago by ★ 4.1k • written 7 days ago by • 0
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Which input file is used for DGEList in EgdeR?
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updated 22 days ago by • 0 • written 15 months ago by ▴ 10
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Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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qvalue
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How to make DGEList and design matrix by edgeR package
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22 days ago prity6459 • 0
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DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
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updated 16 days ago by 42k • written 17 days ago by • 0
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package goseq seems to be not available on the latest version of R
goseq
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Get genomic coordinates of CpGs sites (chromosomes, genomic position)
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10 days ago • updated 9 days ago Yveto • 0
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Limma without eBayes, is it indistunguishable from Ordinary Least Square?
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Fold change calculation in Diffbind vs. DESEQ2?
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Math expression in shapeCustom legend in EnhancedVolcano
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16 days ago • updated 15 days ago pl23 • 0
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How to save the DEXSeq results
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Query regarding phyloseq object construct with QIIME output
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2
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3
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ComplexHeatmap: add pch to rowAnnotation when the input is a data frame with variable number of continuous columns
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26 days ago • updated 25 days ago daniel.carbajo • 0
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122
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Cannabis OrgDb
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2
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DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, parametric = FALSE, : NA/NaN/Inf in foreign function call (arg 1)"
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updated 18 days ago by ▴ 180 • written 14 months ago by ▴ 10
0
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2
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How to use spike-in information (sequences from another species) with DESeq2::DESeq()
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updated 1 day ago by • 0 • written 15 months ago by ▴ 10
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updated 15 days ago by 42k • written 16 days ago by • 0
0
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2
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limma-voom: Calculate the log-fold change in gene expression within a sample
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5
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Help with running egsea()
EGSEA
4 days ago • updated 3 days ago Chris • 0
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CombineArrays for EPIC and EPIC V2
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5 weeks ago • updated 7 days ago Kim • 0
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geneList error in clusterprofiler
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25 days ago Ana • 0
1
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2
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2 days ago • updated 1 day ago Dylan.Sheerin • 0
0
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138
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covariate with negative and positive values
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updated 23 days ago by 42k • written 24 days ago by • 0
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2
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limma for gene expression analysis with big and unbalanced sample size
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updated 11 days ago by • 0 • written 7.9 years ago by • 0
1
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4
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Opposite sign of LFC in count plots of DEGs (DESeq2)
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17 days ago • updated 15 days ago winwater0928 • 0
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3
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log2FoldChange value is way too different when compared with counts(dds)
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updated 9 days ago by 42k • written 10 days ago by • 0
0
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1
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121
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Padj "NA" with thousands of low count although the raw read counts are quite large
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updated 11 days ago by 42k • written 11 days ago by • 0
1
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1
reply
192
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Differentially expressed genes in monocle pseudotime
monocle
updated 25 days ago by 50k • written 27 days ago by • 0
1
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1
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133
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error in limma , contrast.matrix Number of rows of contrast matrix must match number of coefficients in fit
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updated 4 days ago by 65k • written 4 days ago by • 0
2
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2
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397
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[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind Normalization
4 weeks ago • updated 29 days ago Henry ▴ 10
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4
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610
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How to correct for known and surrogate variables in DESeq2?
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updated 25 days ago by 42k • written 6 months ago by • 0
2
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2
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215
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Perform gene set enrichment analysis using fgsea on two conditions that don't have differential express genes
fgsea
12 days ago • updated 11 days ago Chris • 0
3
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3
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235
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DESeq2 - dispersion estimation when there is none
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updated 18 days ago by 42k • written 19 days ago by • 0
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4
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DEseq2 coefficient
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11 weeks ago • updated 9 days ago JKim • 0
194 results • Page 2 of 4
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Answer: SingleR Label.Ont by Denis • 0
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Comment: deseq2 results by sajadahmad41454 • 0
thank you so much and sorry for bothering you again and again, it is urgent because it is my project deadline. i have removed that sample a…
Comment: deseq2 results by swbarnes2 ★ 1.4k
Ask the people who made the libraires if there was anything unusual in the QC of the outlier sample. Try to figure out what biologically …
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did you find a solution? I´m having the same problem
Comment: error by NATASHA • 0
Please ignore, i didnt copy all the scrip
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