Showing : rnaseqgene • reset
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Is there a data package containing complex RNA-Seq data?
RNAseqdataset airway deseq2 rangedsummarizedexperiment rnaseqgene
updated 6.2 years ago by ▴ 160 • written 6.2 years ago by • 0
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2
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291
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RNAseq analysis
rnaseqGene edgeR DEGraph DifferentialExpression
updated 7 weeks ago by 50k • written 7 weeks ago by • 0
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2
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Using RNA-Seq Workflow using Real Life FASTQ data - and Mouse Reference Genome
deseq2 deseqdataset rnaseqgene fastq reference genome
updated 9.0 years ago by 65k • written 9.0 years ago by • 0
3
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5
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How to find Top 10 expressed genes in DESeq2
deseq2 baseMean differential gene expression rnaseqgene
updated 5.3 years ago by ★ 1.4k • written 5.3 years ago by • 0
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2
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825
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R could not could not find function "makeTxDbFromGFF" after loading (GenomicFeatures)
rnaseqGene
updated 10 months ago by 42k • written 10 months ago by • 0
2
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5
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3.0k
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Programs used in RNA-seq workflow
deseq2 bioconductor workflows differential gene expression rnaseqgene
8.1 years ago cirisarri95 • 0
6
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8
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2.5k
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error in RNA-Seq workflow at the gene level
rnaseqgene genomicalignments
updated 8.9 years ago by ★ 8.2k • written 8.9 years ago by • 0
0
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2
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5.1k
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Plots and Heat Maps not displaying in RGui Window
plot heatmap graphical rnaseqgene deseqdataset
9.1 years ago greg.mulhearn • 0
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1.2k
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how to install package of "rnaseqGene" for R (ver: 3.5.2) for windows
rnaseqGene
updated 5.3 years ago by 65k • written 5.3 years ago by ▴ 10
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2
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918
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DESEQ2: rnaseqGene fisison tutorial time course graph has non-numerical x-axis
deseq2 rnaseqGene
5.2 years ago courtney.stairs • 0
0
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7
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3.0k
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Issue installing RNA-seq workflow
software error deseq2 workflow rnaseqGene
updated 4.9 years ago by 25k • written 4.9 years ago by • 0
1
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3
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776
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typo in rnaseqGene workflow vignette.
rnaseqGene workflow deseq2
updated 4.3 years ago by 42k • written 4.3 years ago by ★ 1.5k
3
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3
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876
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A problem about RNA-seq workflow:9 Time course experiments
rnaseqgene
updated 4.0 years ago by 42k • written 4.0 years ago by ▴ 40
2
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1
reply
221
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Continuous variable to identify responder genes using DESeq2
DESeq2 rnaseqGene DifferentialExpression
updated 3 months ago by 42k • written 3 months ago by ▴ 20
1
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6
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1.4k
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Contamination in bulkseq samples. Looking at correlated genes?
RNASeqData DESeq2 rnaseqGene
3.2 years ago Seaweed • 0
1
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2
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806
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toptable sort .by set
limma rnaseqGene
24 months ago snowmattin • 0
2
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2
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828
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Deseq2 Resul variation by LFC variation
rnaseqGene DESeq2 Transcriptomics
2.6 years ago • updated 11 months ago diangomaiga • 0
1
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3
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803
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Bulk RNA seq with deseq2, rnaseqGene, or edgeR
DESeq2 edgeR rnaseqGene
updated 16 months ago by 42k • written 16 months ago by • 0
5
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6
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567
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Monotonic genes in results of differential gene expression analysis
DifferentialExpression rnaseqGene RNASeqData
3 months ago Shaimaa Gamal • 0
1
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4
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562
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rnaSeqGene workflow not available in Bioconductor 3.18
rnaseqGene Bioconductor3.18 DifferentialExpression release
updated 6 months ago by 42k • written 6 months ago by ▴ 60
0
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3
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1.6k
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Gene ontology enrichment analysis
rnaseq rnaseqGene geneontology
updated 18 months ago by 65k • written 18 months ago by • 0
4
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1
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2.0k
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mitochondrial RNA percentage in bulk RNAseq data
rnaseqGene RNASeqR DESeq2 RNAseq
updated 2.5 years ago by 42k • written 2.5 years ago by ▴ 10
2
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2
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1.7k
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DESeq2 - one groups with no replicates
DESeq2 rnaseqGene DifferentialExpression GeneExpression
2.9 years ago SUMIT • 0
0
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1
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873
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Ensembl dataset version
tximport rna rnaseqGene biomaRt
updated 2.3 years ago by ★ 4.1k • written 2.3 years ago by • 0
6
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10
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1.5k
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rnaseqGene: Different output when generating step by step airway dataset
tximeta DESeq2 rnaseqGene
updated 2.5 years ago by 42k • written 2.5 years ago by ▴ 20
3
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5
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640
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DESEQ Inquiry
DESeq2 rnaseqGene RNASeqData limma RNASeq
updated 9 weeks ago by 42k • written 10 weeks ago by ▴ 10
0
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1
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42
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normalization using Deseq2
DESeq2 rnaseqGene Normalization
updated 21 hours ago by ★ 4.1k • written 22 hours ago by • 0
0
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3
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1.7k
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Questions regarding convertIDs in the rnaseqGene Package
rnaseqGene convertIDs
9.1 years ago Cheng-Yuan Kao ▴ 100
3
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2
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1.8k
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Annotating RNAseq with GO (gene ontology) returns #NA for (nearly) all Entrez ids.
org.mm.eg.db annotation rnaseqgene
updated 8.8 years ago by 65k • written 8.8 years ago by • 0
0
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1
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2.0k
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Unable to access index for repository... rnaseqGene sequencing workflows
rnaseqGene genomic sequencing
updated 8.5 years ago by ★ 8.2k • written 8.5 years ago by • 0
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4
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1.8k
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workflow.R in BioC 3.3
workflows rnaseqgene
updated 7.9 years ago by • 0 • written 8.0 years ago by • 0
0
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1
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1.8k
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can't install workflow "rnaseqGene" with Bioconductor version3.3
bioconductor workflowinstall error rnaseqgene
updated 7.9 years ago by ★ 6.8k • written 7.9 years ago by ▴ 20
2
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5
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1.6k
views
Accessing R 3.4.2 version on mac, to use 'rnaseqGene' package
rnaseq rnaseqgene R 3.4.2 Mac
updated 6.1 years ago by 3.9k • written 6.1 years ago by • 0
1
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3
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1.3k
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how to find expressed genes in RNAseq
deseq2 rnaseq differential gene expression featurecounts rnaseqGene
5.4 years ago melkile26 • 0
0
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0
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741
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display .CT files in a BioC package
RNAinteract rnaseqGene RNASeqRData rnaseqcomp
3.2 years ago Bogdan ▴ 670
2
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5
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139
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deseq2 results
DESeq2 DifferentialExpression rnaseqGene DifferentialRegulation
1 day ago • updated 3 hours ago sajadahmad41454 • 0
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6
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3.9k
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Problem when constructing a TxDb with makeTxDbFromGFF:Error in dbGetQuery(conn,SQL) :
R differential expression rnaseqgene
8.6 years ago JunLVI ▴ 40
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1.2k
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Minor error in the RNASeqGene workflow
rnaseqgene
9.2 years ago snf ▴ 10
38 results • Page 1 of 1
Recent ...
Replies
Comment: deseq2 results by sajadahmad41454 • 0
thank you for your response, should i remove or discard that sample? since the red outlier on left represents one of healthy samples.
Comment: deseq2 results by swbarnes2 ★ 1.4k
It looks like the PCA plot of a real RNASeq experiment. The red outlier on the left might be the mathematical reason why you have few vali…
Comment: Multi-factorial, longitudinal disease progression analysis with unbalanced patie by Dylan.Sheerin • 0
Thank you very much, Gordon. I'll give voomLmFit a go!
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie by Gordon Smyth 50k
Including subjectID in the design matrix always accounts for unbalanced sampling and patient variation but subjects with incomplete records…
Comment: Log-cpm values from limma by Gordon Smyth 50k
No, it does not mean that. `voom()` uses the design matrix with the W covariates, to compute precision weights but not to adjust the log-cp…
Votes
Comment: deseq2 results
Comment: deseq2 results
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
Answer: Extremely small p-values using Limma for proteomic data
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