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updated 22 days ago by 42k • written 22 days ago by ▴ 20
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353
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22 days ago • updated 20 days ago winwater0928 • 0
3
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updated 23 days ago by 42k • written 23 days ago by ▴ 40
1
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742
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131
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379
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DESeq2 output used for PCA plot on R studio
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updated 21 days ago by ★ 1.4k • written 23 days ago by • 0
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23 days ago info ▴ 10
1
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4
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225
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minfi::read.metharray.exp
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0
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2
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264
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featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_get_next_read_BIN: Assertion `l_name < 256' failed. Aborted (core dumpe…
metaMSdata
23 days ago • updated 21 days ago shuwangxinze1996 • 0
1
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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 24 days ago by ▴ 180 • written 14 months ago by ▴ 10
0
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2
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187
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limma-voom: Calculate the log-fold change in gene expression within a sample
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written 24 days ago by • 0
3
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3
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249
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DESeq2 - dispersion estimation when there is none
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updated 23 days ago by 42k • written 24 days ago by • 0
2
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4
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274
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Error EPICv2 ChAMP
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updated 24 days ago by 65k • written 28 days ago by • 0
0
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1
reply
135
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FDR via q-value
qvalue
updated 24 days ago by 65k • written 27 days ago by • 0
0
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5
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321
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Error for AnnotationForge makeOrgPackageFromNCBI function
OrgDb AnnotationForge
updated 22 days ago by 65k • written 25 days ago by • 0
0
votes
2
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235
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RNAseq:Technical replicates from different batches
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27 days ago • updated 24 days ago catv • 0
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3
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News: European Bioconductor Conference 2023 planning
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6
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12
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BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
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6 months ago • updated 24 days ago shepherl 3.9k
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13
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475
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Trying to use enrichGO
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25 days ago • updated 22 days ago fernanda.backsouza ▴ 10
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0
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94
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Unlocking Potential: NURS FPX Strategies and Insights
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25 days ago vaxahey107 • 0
15
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17
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Why p value inconsistent when using different number of pathway score?
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26 days ago • updated 15 days ago Chris ▴ 10
0
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0
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105
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I am trying to detect alternative splicing.
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26 days ago Sebashish • 0
3
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2
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229
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Cannabis and KEGGgraph
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updated 24 days ago by ★ 4.0k • written 27 days ago by ▴ 10
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3
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Error retrieving ensembl gene id using biomaRt...
biomaRt
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2
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2
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209
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OrgDb for maize
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1
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0
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Tutorial: Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
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6
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edgeR
29 days ago • updated 24 days ago Jonathan ▴ 10
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27 days ago prity6459 • 0
0
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3
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Finding DEGs by using edgeR
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updated 27 days ago by 50k • written 28 days ago by • 0
5
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Log-cpm values from limma
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0
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4
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FGSEA pre-ranked input in increasing order or decreasing
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28 days ago sropri • 0
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DEXSeq
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Adding columns to DEXSeqResults object
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Warning while loading DEP package
DEP
updated 28 days ago by 3.9k • written 28 days ago by • 0
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rlog transformation
DESeq2
updated 28 days ago by 42k • written 28 days ago by • 0
0
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124
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ONT long-read RNA sequencing - data analysis options
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DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
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29 days ago • updated 20 days ago Patadù ▴ 10
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149
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covariate with negative and positive values
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updated 28 days ago by 42k • written 4 weeks ago by • 0
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significant difference of p-values with dream() after updating VariancePartition
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28 days ago Le • 0
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29 days ago • updated 28 days ago Sherin • 0
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Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind DESeq2 ATACSeq
29 days ago • updated 26 days ago lonn • 0
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4 weeks ago Maliha Tabassum • 0
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Comment: Ensembl plants at annotationHub? by Daniele • 0
Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30
Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
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So it turns out that if the count and the size are the same in 'GOstats", the odds ratio is 'inf'. These are causing the issue. Thank you!!
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Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
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