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rnaseqGene
•
reset
3
votes
5
replies
7.7k
views
How to find Top 10 expressed genes in DESeq2
deseq2
baseMean
differential gene expression
rnaseqgene
updated 5.2 years ago by
swbarnes2
★ 1.3k • written 5.2 years ago by
melkile26
• 0
0
votes
2
replies
5.1k
views
Plots and Heat Maps not displaying in RGui Window
plot
heatmap
graphical
rnaseqgene
deseqdataset
9.0 years ago
greg.mulhearn
• 0
0
votes
6
replies
3.9k
views
Problem when constructing a TxDb with makeTxDbFromGFF:Error in dbGetQuery(conn,SQL) :
R
differential expression
rnaseqgene
8.5 years ago
JunLVI
▴ 40
0
votes
2
replies
3.1k
views
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
James W. MacDonald
65k • written 9.0 years ago by
greg.mulhearn
• 0
2
votes
5
replies
3.0k
views
Programs used in RNA-seq workflow
deseq2
bioconductor
workflows
differential gene expression
rnaseqgene
8.1 years ago
cirisarri95
• 0
0
votes
7
replies
3.0k
views
Issue installing RNA-seq workflow
software error
deseq2
workflow
rnaseqGene
updated 4.9 years ago by
Martin Morgan
25k • written 4.9 years ago by
pavan-bioconductor
• 0
6
votes
8
replies
2.5k
views
error in RNA-Seq workflow at the gene level
rnaseqgene
genomicalignments
updated 8.9 years ago by
Dan Tenenbaum
★ 8.2k • written 8.9 years ago by
hope-dream
• 0
0
votes
1
reply
2.0k
views
Unable to access index for repository... rnaseqGene sequencing workflows
rnaseqGene
genomic sequencing
updated 8.5 years ago by
Dan Tenenbaum
★ 8.2k • written 8.5 years ago by
virctoalgn
• 0
4
votes
1
reply
2.0k
views
mitochondrial RNA percentage in bulk RNAseq data
rnaseqGene
RNASeqR
DESeq2
RNAseq
updated 2.5 years ago by
Michael Love
41k • written 2.5 years ago by
sohail.mbio
▴ 10
0
votes
4
replies
1.8k
views
workflow.R in BioC 3.3
workflows
rnaseqgene
updated 7.9 years ago by
j.baldauf
• 0 • written 7.9 years ago by
yasmin.friedmann
• 0
3
votes
2
replies
1.8k
views
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
James W. MacDonald
65k • written 8.8 years ago by
michael.willcockson
• 0
0
votes
1
reply
1.8k
views
can't install workflow "rnaseqGene" with Bioconductor version3.3
bioconductor
workflowinstall
error
rnaseqgene
updated 7.9 years ago by
Valerie Obenchain
★ 6.8k • written 7.9 years ago by
cagenet34
▴ 20
0
votes
3
replies
1.7k
views
Questions regarding convertIDs in the rnaseqGene Package
rnaseqGene
convertIDs
9.1 years ago
Cheng-Yuan Kao
▴ 100
2
votes
2
replies
1.6k
views
DESeq2 - one groups with no replicates
DESeq2
rnaseqGene
DifferentialExpression
GeneExpression
2.9 years ago
SUMIT
• 0
0
votes
3
replies
1.6k
views
Gene ontology enrichment analysis
rnaseq
rnaseqGene
geneontology
updated 17 months ago by
James W. MacDonald
65k • written 17 months ago by
acram
• 0
2
votes
5
replies
1.6k
views
Accessing R 3.4.2 version on mac, to use 'rnaseqGene' package
rnaseq
rnaseqgene
R 3.4.2 Mac
updated 6.0 years ago by
shepherl
3.9k • written 6.0 years ago by
harry.horsnell.17
• 0
6
votes
10
replies
1.5k
views
rnaseqGene: Different output when generating step by step airway dataset
tximeta
DESeq2
rnaseqGene
updated 2.5 years ago by
Michael Love
41k • written 2.5 years ago by
jorgeplaza
▴ 20
1
vote
6
replies
1.4k
views
Contamination in bulkseq samples. Looking at correlated genes?
RNASeqData
DESeq2
rnaseqGene
3.2 years ago
Seaweed
• 0
0
votes
2
replies
1.3k
views
Is there a data package containing complex RNA-Seq data?
RNAseqdataset
airway
deseq2
rangedsummarizedexperiment
rnaseqgene
updated 6.1 years ago by
mario.zanfardino
▴ 160 • written 6.1 years ago by
ap3637
• 0
1
vote
3
replies
1.3k
views
how to find expressed genes in RNAseq
deseq2
rnaseq
differential gene expression
featurecounts
rnaseqGene
5.4 years ago • updated 5.3 years ago
melkile26
• 0
0
votes
0
replies
1.2k
views
Minor error in the RNASeqGene workflow
rnaseqgene
9.2 years ago
snf
▴ 10
1
vote
2
replies
1.2k
views
how to install package of "rnaseqGene" for R (ver: 3.5.2) for windows
rnaseqGene
updated 5.2 years ago by
James W. MacDonald
65k • written 5.2 years ago by
mheydarpour
▴ 10
0
votes
2
replies
916
views
DESEQ2: rnaseqGene fisison tutorial time course graph has non-numerical x-axis
deseq2
rnaseqGene
5.2 years ago
courtney.stairs
• 0
3
votes
3
replies
871
views
A problem about RNA-seq workflow:9 Time course experiments
rnaseqgene
updated 3.9 years ago by
Michael Love
41k • written 3.9 years ago by
Guandong Shang
▴ 40
0
votes
1
reply
868
views
Ensembl dataset version
tximport
rna
rnaseqGene
biomaRt
updated 2.3 years ago by
ATpoint
★ 4.1k • written 2.3 years ago by
st3472
• 0
2
votes
2
replies
819
views
Deseq2 Resul variation by LFC variation
rnaseqGene
DESeq2
Transcriptomics
2.6 years ago • updated 11 months ago
diangomaiga
• 0
0
votes
2
replies
802
views
R could not could not find function "makeTxDbFromGFF" after loading (GenomicFeatures)
rnaseqGene
updated 9 months ago by
Michael Love
41k • written 9 months ago by
ikpa_p123
• 0
1
vote
2
replies
797
views
toptable sort .by set
limma
rnaseqGene
24 months ago
snowmattin
• 0
1
vote
3
replies
794
views
Bulk RNA seq with deseq2, rnaseqGene, or edgeR
DESeq2
edgeR
rnaseqGene
updated 15 months ago by
Michael Love
41k • written 16 months ago by
vpl685
• 0
1
vote
3
replies
768
views
typo in rnaseqGene workflow vignette.
rnaseqGene
workflow
deseq2
updated 4.3 years ago by
Michael Love
41k • written 4.3 years ago by
Assa Yeroslaviz
★ 1.5k
0
votes
0
replies
736
views
display .CT files in a BioC package
RNAinteract
rnaseqGene
RNASeqRData
rnaseqcomp
3.2 years ago
Bogdan
▴ 670
3
votes
5
replies
615
views
DESEQ Inquiry
DESeq2
rnaseqGene
RNASeqData
limma
RNASeq
updated 8 weeks ago by
Michael Love
41k • written 9 weeks ago by
sap275
▴ 10
1
vote
4
replies
550
views
rnaSeqGene workflow not available in Bioconductor 3.18
rnaseqGene
Bioconductor3.18
DifferentialExpression
release
updated 5 months ago by
Michael Love
41k • written 5 months ago by
Nadine
▴ 60
5
votes
6
replies
545
views
Monotonic genes in results of differential gene expression analysis
DifferentialExpression
rnaseqGene
RNASeqData
3 months ago
Shaimaa Gamal
• 0
0
votes
2
replies
268
views
RNAseq analysis
rnaseqGene
edgeR
DEGraph
DifferentialExpression
updated 6 weeks ago by
Gordon Smyth
50k • written 6 weeks ago by
z_bahari
• 0
2
votes
1
reply
212
views
Continuous variable to identify responder genes using DESeq2
DESeq2
rnaseqGene
DifferentialExpression
updated 12 weeks ago by
Michael Love
41k • written 3 months ago by
Abhishek Singh
▴ 20
36 results • Page
1 of 1
Recent ...
Replies
Comment: Deseq2 and Normalization of RNA sequencing data
by
kcarey
• 0
Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …
Answer: NEED FOR NESSASORY HELP
by
Gordon Smyth
50k
Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…
Answer: Gene-by-sample covariates in limma
by
Gordon Smyth
50k
Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Gordon Smyth
50k
You have discovered something that I have pointed out many times on this forum. fgsea does not implement the classic GSEA method published …
Comment: Once again a "Model matrix not full rank"
by
James W. MacDonald
65k
In that case both time and treatment are identical things, so choose one and go with it.
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
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