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rnaseqGene
•
reset
3
votes
5
replies
7.4k
views
How to find Top 10 expressed genes in DESeq2
deseq2
baseMean
differential gene expression
rnaseqgene
updated 5.1 years ago by
swbarnes2
★ 1.3k • written 5.1 years ago by
melkile26
• 0
2
votes
5
replies
3.0k
views
Programs used in RNA-seq workflow
deseq2
bioconductor
workflows
differential gene expression
rnaseqgene
8.0 years ago
cirisarri95
• 0
6
votes
8
replies
2.4k
views
error in RNA-Seq workflow at the gene level
rnaseqgene
genomicalignments
updated 8.8 years ago by
Dan Tenenbaum
★ 8.2k • written 8.8 years ago by
hope-dream
• 0
0
votes
2
replies
5.0k
views
Plots and Heat Maps not displaying in RGui Window
plot
heatmap
graphical
rnaseqgene
deseqdataset
8.9 years ago
greg.mulhearn
• 0
0
votes
2
replies
716
views
R could not could not find function "makeTxDbFromGFF" after loading (GenomicFeatures)
rnaseqGene
updated 8 months ago by
Michael Love
41k • written 8 months ago by
ikpa_p123
• 0
0
votes
2
replies
1.3k
views
Is there a data package containing complex RNA-Seq data?
RNAseqdataset
airway
deseq2
rangedsummarizedexperiment
rnaseqgene
updated 6.0 years ago by
mario.zanfardino
▴ 160 • written 6.0 years ago by
ap3637
• 0
0
votes
2
replies
211
views
RNAseq analysis
rnaseqGene
edgeR
DEGraph
DifferentialExpression
updated 12 days ago by
Gordon Smyth
50k • written 13 days ago by
z_bahari
• 0
0
votes
2
replies
3.0k
views
Using RNA-Seq Workflow using Real Life FASTQ data - and Mouse Reference Genome
deseq2
deseqdataset
rnaseqgene
fastq
reference genome
updated 8.9 years ago by
James W. MacDonald
65k • written 8.9 years ago by
greg.mulhearn
• 0
1
vote
2
replies
1.2k
views
how to install package of "rnaseqGene" for R (ver: 3.5.2) for windows
rnaseqGene
updated 5.1 years ago by
James W. MacDonald
65k • written 5.1 years ago by
mheydarpour
▴ 10
0
votes
2
replies
883
views
DESEQ2: rnaseqGene fisison tutorial time course graph has non-numerical x-axis
deseq2
rnaseqGene
5.1 years ago
courtney.stairs
• 0
0
votes
7
replies
2.9k
views
Issue installing RNA-seq workflow
software error
deseq2
workflow
rnaseqGene
updated 4.8 years ago by
Martin Morgan
25k • written 4.8 years ago by
pavan-bioconductor
• 0
3
votes
3
replies
837
views
A problem about RNA-seq workflow:9 Time course experiments
rnaseqgene
updated 3.8 years ago by
Michael Love
41k • written 3.8 years ago by
Guandong Shang
▴ 40
2
votes
1
reply
177
views
Continuous variable to identify responder genes using DESeq2
DESeq2
rnaseqGene
DifferentialExpression
updated 7 weeks ago by
Michael Love
41k • written 8 weeks ago by
Abhishek Singh
▴ 20
1
vote
6
replies
1.3k
views
Contamination in bulkseq samples. Looking at correlated genes?
RNASeqData
DESeq2
rnaseqGene
3.1 years ago
Seaweed
• 0
1
vote
3
replies
736
views
typo in rnaseqGene workflow vignette.
rnaseqGene
workflow
deseq2
updated 4.2 years ago by
Michael Love
41k • written 4.2 years ago by
Assa Yeroslaviz
★ 1.5k
0
votes
3
replies
1.7k
views
Questions regarding convertIDs in the rnaseqGene Package
rnaseqGene
convertIDs
9.0 years ago
Cheng-Yuan Kao
▴ 100
3
votes
2
replies
1.7k
views
Annotating RNAseq with GO (gene ontology) returns #NA for (nearly) all Entrez ids.
org.mm.eg.db
annotation
rnaseqgene
updated 8.7 years ago by
James W. MacDonald
65k • written 8.7 years ago by
michael.willcockson
• 0
0
votes
1
reply
2.0k
views
Unable to access index for repository... rnaseqGene sequencing workflows
rnaseqGene
genomic sequencing
updated 8.4 years ago by
Dan Tenenbaum
★ 8.2k • written 8.4 years ago by
virctoalgn
• 0
0
votes
4
replies
1.8k
views
workflow.R in BioC 3.3
workflows
rnaseqgene
updated 7.8 years ago by
j.baldauf
• 0 • written 7.8 years ago by
yasmin.friedmann
• 0
0
votes
1
reply
1.8k
views
can't install workflow "rnaseqGene" with Bioconductor version3.3
bioconductor
workflowinstall
error
rnaseqgene
updated 7.8 years ago by
Valerie Obenchain
★ 6.8k • written 7.8 years ago by
cagenet34
▴ 20
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
3.8k • written 6.0 years ago by
harry.horsnell.17
• 0
1
vote
3
replies
1.2k
views
how to find expressed genes in RNAseq
deseq2
rnaseq
differential gene expression
featurecounts
rnaseqGene
5.3 years ago • updated 5.2 years ago
melkile26
• 0
0
votes
1
reply
839
views
Ensembl dataset version
tximport
rna
rnaseqGene
biomaRt
updated 2.2 years ago by
ATpoint
★ 4.0k • written 2.2 years ago by
st3472
• 0
6
votes
10
replies
1.4k
views
rnaseqGene: Different output when generating step by step airway dataset
tximeta
DESeq2
rnaseqGene
updated 2.4 years ago by
Michael Love
41k • written 2.4 years ago by
jorgeplaza
▴ 20
3
votes
5
replies
543
views
DESEQ Inquiry
DESeq2
rnaseqGene
RNASeqData
limma
RNASeq
updated 24 days ago by
Michael Love
41k • written 4 weeks ago by
sap275
▴ 10
1
vote
2
replies
749
views
toptable sort .by set
limma
rnaseqGene
22 months ago
snowmattin
• 0
2
votes
2
replies
781
views
Deseq2 Resul variation by LFC variation
rnaseqGene
DESeq2
Transcriptomics
2.5 years ago • updated 10 months ago
diangomaiga
• 0
1
vote
3
replies
733
views
Bulk RNA seq with deseq2, rnaseqGene, or edgeR
DESeq2
edgeR
rnaseqGene
updated 14 months ago by
Michael Love
41k • written 14 months ago by
vpl685
• 0
5
votes
6
replies
478
views
Monotonic genes in results of differential gene expression analysis
DifferentialExpression
rnaseqGene
RNASeqData
9 weeks ago
Shaimaa Gamal
• 0
1
vote
4
replies
480
views
rnaSeqGene workflow not available in Bioconductor 3.18
rnaseqGene
Bioconductor3.18
DifferentialExpression
release
updated 4 months ago by
Michael Love
41k • written 4 months ago by
Nadine
▴ 60
0
votes
3
replies
1.5k
views
Gene ontology enrichment analysis
rnaseq
rnaseqGene
geneontology
updated 16 months ago by
James W. MacDonald
65k • written 16 months ago by
acram
• 0
4
votes
1
reply
1.9k
views
mitochondrial RNA percentage in bulk RNAseq data
rnaseqGene
RNASeqR
DESeq2
RNAseq
updated 2.4 years ago by
Michael Love
41k • written 2.4 years ago by
sohail.mbio
▴ 10
2
votes
2
replies
1.6k
views
DESeq2 - one groups with no replicates
DESeq2
rnaseqGene
DifferentialExpression
GeneExpression
2.8 years ago
SUMIT
• 0
0
votes
0
replies
711
views
display .CT files in a BioC package
RNAinteract
rnaseqGene
RNASeqRData
rnaseqcomp
3.1 years ago
Bogdan
▴ 670
0
votes
6
replies
3.8k
views
Problem when constructing a TxDb with makeTxDbFromGFF:Error in dbGetQuery(conn,SQL) :
R
differential expression
rnaseqgene
8.5 years ago • updated 8.4 years ago
JunLVI
▴ 40
0
votes
0
replies
1.2k
views
Minor error in the RNASeqGene workflow
rnaseqgene
9.1 years ago
snf
▴ 10
36 results • Page
1 of 1
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Replies
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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