Showing : RNASeqData • reset
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Query regarding WGCNA module formation
WGCNA RNAseq RNASeqData
updated 13 days ago by ▴ 640 • written 14 days ago by • 0
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3
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118
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Contrasting LogFCs in DESeq2
DESeq2 RNASeqData
updated 13 days ago by ▴ 780 • written 14 days ago by • 0
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1
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79
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t.fit stops in masigpro while running RNA seq data
RNASeqData maSigPro
6 weeks ago subashika • 0
3
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2
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132
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handling outliers with DESeq2
RNASeqData DESeq2 Outliers
7 weeks ago paty ▴ 20
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3
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211
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Mapping EntrezId to Ensembl IDs returns NA for pseudogenes and snoRNA
RNASeqData RNASeq RNASeqR
8 weeks ago dantasezequiel1 • 0
1
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15
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358
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between and within subjects design with batch correction
RNASeqData BatchEffect paired DESeq2
9 weeks ago • updated 8 weeks ago demisa • 0
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6
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200
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while doing co-expression network analysis, I am getting an error
RNASeqData
10 weeks ago • updated 9 weeks ago Rishav ▴ 20
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8
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253
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While trying to remove non differentially expressed genes through limma, I am getting a warning
RNASeqData
updated 10 weeks ago by 43k • written 10 weeks ago by ▴ 20
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4
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214
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GEO + RNA-seq. Total Newbie.
RNASeqData RNASeq GEO RNASeqR HELP
10 weeks ago hgalmoore • 0
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4
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210
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How to use combat in order to remove batch effects?
BatchEffect DESeq2 RNASeqData
written 3 months ago by • 0
3
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2
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186
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Why some statistically differently expressed genes are not DEGs?
RNASeqData DEGreport edgeR
3 months ago Wuschel ▴ 10
1
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6
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221
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Contamination in bulkseq samples. Looking at correlated genes?
RNASeqData DESeq2 rnaseqGene
4 months ago Seaweed • 0
7
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5
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284
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Normalise to a housekeeping gene in DESEq2
DESeq2 housekeeping R RNASeqData
6 months ago ecg1g15 • 0
3
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6
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340
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Different contrast coding strategies in DESeq2 produce slightly different output?
DESeq2 RNASeqData DifferentialExpression
updated 6 months ago by 33k • written 6 months ago by ▴ 20
2
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4
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364
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Compare 3 RNASeq groups with no control in DESeq2
anova RNASeqData tukeyTest DESeq2
6 months ago ecg1g15 • 0
0
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1
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122
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RNA gene expression data retrieval for breast cancer subtypes
RNASeqData GenomeInfoDb
updated 6 months ago by 3.1k • written 6 months ago by • 0
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3
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922
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Package ‘#####’ was installed before R 4.0.0: please re-install it
Bioconductor RNASeqData DESeq2 Rsubread
updated 7 months ago by 57k • written 7 months ago by • 0
0
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1
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736
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RNASeq analysis - Test for effect of two variables on one (Genotype)
deseq2 multiple factor design rnaseqdata
updated 5.2 years ago by 33k • written 5.2 years ago by ▴ 70
1
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2
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972
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Binning expression data along with capturing gene identifiers
rnaseqdata clustering
updated 6.4 years ago by ★ 1.9k • written 6.4 years ago by ▴ 150
0
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10
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1.8k
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GenomicAlignments - Speeding up readGAlignmentPairs()
Cancer RNAseqData GenomicFeatures Cancer RNAseqData GenomicFeatures
updated 7.0 years ago by ▴ 320 • written 7.0 years ago by ★ 6.7k
20 results • Page 1 of 1
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Answer: DESeq2 for allele-specific expression with contrasts between conditions by Michael Love 33k
There is a section in the vignette on interactions that will help you here. You want to test for within-individual effects (`allele`) and c…
Answer: Issues with Tximport by Michael Love 33k
Your file has no version numbers, while your `tx2gene` does have version numbers. While the names look similar, they are not a match. tximp…
Answer: Using tximeta::summarizeToGene function; Warning message: call dbDisconnect() w by Michael Love 33k
This is fine and ignorable, it is coming from upstream packages: our use of a TxDb object to pull out transcript to gene mappings.
Comment: DESeq2: NA's in mcols(object)$betaConv by Michael Love 33k
They are actually rounded to zero in the `dds` which requires integer values.
Comment: Reading multiple data segments from FCS 3.0 file by Prashant • 0
If I would like to automate this in a function, is there any way or function that can figure out `ndataset` from the .fcs file directly? I …
Votes
Comment: DESeq2: NA's in mcols(object)$betaConv
Answer: Using tximeta::summarizeToGene function; Warning message: call dbDisconnect() w
simultaneous use of robust and weighting methods in limma
simultaneous use of robust and weighting methods in limma
Answer: RUVSeq and Salmon
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