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102
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I am trying to detect alternative splicing.
ASpli
22 days ago
Sebashish
• 0
3
votes
2
replies
220
views
Cannabis and KEGGgraph
KEGGREST
GenomicDistributionsData
KEGGgraph
KEGG
updated 20 days ago by
Guido Hooiveld
★ 3.9k • written 23 days ago by
fernanda.backsouza
▴ 10
0
votes
3
replies
165
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 23 days ago by
James W. MacDonald
65k • written 23 days ago by
bas_work
▴ 30
2
votes
2
replies
200
views
OrgDb for maize
clusterProfiler
OrgDb
biomaRt
Zea_mays
updated 23 days ago by
James W. MacDonald
65k • written 24 days ago by
sansan
• 0
1
vote
0
replies
313
views
Tutorial:
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
bioconductor
Install
23 days ago
BioinfGuru
▴ 30
4
votes
6
replies
449
views
FilterByExpr low counts with small sample size
edgeR
25 days ago • updated 20 days ago
Jonathan
▴ 10
0
votes
2
replies
142
views
How to make DGEList and design matrix by edgeR package
DGEList
edgeR
23 days ago
prity6459
• 0
0
votes
3
replies
197
views
Finding DEGs by using edgeR
subsettingdata
edgeR
designmatrix
updated 23 days ago by
Gordon Smyth
50k • written 24 days ago by
prity6459
• 0
5
votes
3
replies
283
views
Log-cpm values from limma
limma
edgeR
RNASeq
updated 2 days ago by
Gordon Smyth
50k • written 24 days ago by
Shaimaa Gamal
• 0
0
votes
4
replies
211
views
FGSEA pre-ranked input in increasing order or decreasing
fgsea
24 days ago
sropri
• 0
0
votes
3
replies
177
views
Different number of exons in reference genome affects DEXSeq analysis
DEXSeq
updated 12 days ago by
Alejandro Reyes
★ 1.9k • written 24 days ago by
Alessia
• 0
0
votes
1
reply
162
views
Adding columns to DEXSeqResults object
DEXSeq
updated 24 days ago by
Alejandro Reyes
★ 1.9k • written 26 days ago by
Clyde
• 0
0
votes
0
replies
129
views
Warning while loading DEP package
DEP
updated 24 days ago by
shepherl
3.9k • written 24 days ago by
Namrata
• 0
0
votes
1
reply
144
views
rlog transformation
DESeq2
updated 24 days ago by
Michael Love
42k • written 24 days ago by
ishij9717
• 0
0
votes
1
reply
119
views
ONT long-read RNA sequencing - data analysis options
DESeq2
LongRead
DEXSeq
IsoformSwitchAnalyzeR
RNASeq
updated 24 days ago by
Michael Love
42k • written 24 days ago by
09191919
• 0
1
vote
2
replies
725
views
DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
DESeq2
25 days ago • updated 16 days ago
ussarizona
▴ 10
0
votes
1
reply
139
views
covariate with negative and positive values
DESeq2
updated 24 days ago by
Michael Love
42k • written 26 days ago by
Brynn
• 0
0
votes
1
reply
157
views
DESEQ2 output gives multiple groups when only 2 groups are present
DESeq2
updated 24 days ago by
ATpoint
★ 4.1k • written 25 days ago by
quanah.hudson
• 0
1
vote
2
replies
228
views
significant difference of p-values with dream() after updating VariancePartition
variancePartition
24 days ago
Le
• 0
1
vote
2
replies
168
views
Error in champ.load(): The following specified files do not exist
ChAMP
25 days ago • updated 24 days ago
Sherin
• 0
0
votes
1
reply
104
views
Input Question for deseq.r
RSeqAn
updated 24 days ago by
ATpoint
★ 4.1k • written 25 days ago by
Nina
• 0
0
votes
4
replies
248
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
25 days ago • updated 22 days ago
lonn
• 0
0
votes
7
replies
334
views
Methylation Analysis experiment design using Limma
DNAMethylation
limma
methylationArrayAnalysis
25 days ago • updated 19 days ago
hortense96
• 0
0
votes
0
replies
89
views
News:
Services
flowBeads
25 days ago
creativepeptides2018
• 0
0
votes
0
replies
87
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Enzyme Engineering
BioTIP
25 days ago
bocchemistry
• 0
0
votes
0
replies
88
views
News:
TIDES USA 2024
flowBeads
25 days ago
bocsci11
• 0
0
votes
0
replies
97
views
Syntaxt Error in IsorcorrectoR package with Molecule Info File
Syntaxerror
IsoCorrectoR
26 days ago
Maliha Tabassum
• 0
0
votes
4
replies
202
views
flowStats Search Error
flowStats
updated 26 days ago by
shepherl
3.9k • written 27 days ago by
tholmes
• 0
3
votes
18
replies
3.0k
views
News:
List of Deprecated Packages for Bioc3.18
Deprecation
devel
Bioconductor
Devel
10 months ago • updated 25 days ago
shepherl
3.9k
0
votes
1
reply
144
views
SNP locus package for mouse?
SNPlocs
packFinder
updated 26 days ago by
James W. MacDonald
65k • written 29 days ago by
tian.liu0720
• 0
1
vote
2
replies
152
views
geneList error in clusterprofiler
clusterProfiler
GeneSetEnrichment
26 days ago
Ana
• 0
0
votes
5
replies
1.7k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 13 months ago by
mauricio.microbiol
• 0
0
votes
1
reply
127
views
what is the sampleFiles
chipseq
updated 26 days ago by
James W. MacDonald
65k • written 26 days ago by
zhulin
• 0
1
vote
1
reply
193
views
Differentially expressed genes in monocle pseudotime
monocle
updated 26 days ago by
Gordon Smyth
50k • written 29 days ago by
kthapa
• 0
4
votes
9
replies
461
views
Memory errors using read.bismark?
dmrseq
bsseq
4 weeks ago • updated 5 days ago
Juan Higareda
• 0
3
votes
3
replies
225
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array
BiocGenerics
BiocParallel
Biobase
4 weeks ago • updated 24 days ago
jacques.imbert
• 0
0
votes
1
reply
156
views
The issue with SGSeq_analyzeFeatures() returns errors on BAM files
SGSeq
updated 26 days ago by
kamryncole1963
• 0 • written 4 weeks ago by
Sara
• 0
0
votes
3
replies
213
views
Interaction Terms in DESeq2 - Shrinkage
DESeq2
updated 26 days ago by
Michael Love
42k • written 27 days ago by
andrebolerbarros
▴ 20
0
votes
0
replies
101
views
Diffbind Error in socketConnection
DiffBind
Errorinsocketconnection
SpikeIn
27 days ago
Virangika
• 0
0
votes
0
replies
77
views
[ChIPseeker] Unable to perform gene ontology analysis
ChIPseeker
27 days ago
Henry
▴ 10
1
vote
2
replies
250
views
How to retrieve detailed regression results from deseq2
DESeq2
4 weeks ago • updated 23 days ago
Weiqian
▴ 10
0
votes
4
replies
280
views
DEG with low counts
DESeq2
updated 23 days ago by
Michael Love
42k • written 28 days ago by
Rajat
• 0
1
vote
2
replies
602
views
GSVA error
GSVA
28 days ago • updated 27 days ago
Alex
• 0
2
votes
3
replies
334
views
ComplexHeatmap: add pch to rowAnnotation when the input is a data frame with variable number of continuous columns
ComplexHeatmap
27 days ago • updated 26 days ago
daniel.carbajo
• 0
3
votes
3
replies
358
views
permutation test in edgeR
rna-seq
edgeR
updated 22 days ago by
Gordon Smyth
50k • written 4 weeks ago by
Netanel
• 0
1
vote
3
replies
357
views
Why is my gene not significantly differentially expressed?
limmaGUI
edgeR
limma
updated 27 days ago by
Gordon Smyth
50k • written 4 weeks ago by
Simran
• 0
0
votes
1
reply
138
views
Deseq2 Rlog transformation
DESeq2
updated 27 days ago by
ATpoint
★ 4.1k • written 29 days ago by
Sahar
• 0
0
votes
1
reply
718
views
Query regarding phyloseq object construct with QIIME output
phyloseq
microbiome
Metagenomics
updated 4 weeks ago by
President Gamer
• 0 • written 11 months ago by
abhisek001
• 0
1
vote
2
replies
205
views
Design Matrix within group comparison more than two groups
DESeq2
4 weeks ago • updated 29 days ago
hemantcnaik
• 0
2
votes
2
replies
208
views
How many of my genes from my gene list are in each KEGG pathway?
Pathways
clusterProfiler
gseKEGG
KEGG
4 weeks ago
julia_mcdonough
• 0
1,726 results • Page
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Comment: More regions in union when increasing DBA$config$mergeOverlap
by
Ziliang
• 0
I am so confused and frustrated learning to use this software. Isn't how you merge the peaksets one of the most important steps for the com…
Answer: SingleR Label.Ont
by
Denis
• 0
[Jackpot City Casino][1] is the perfect option when looking for an online casino in Canada for an exciting vacation and huge winnings that …
Comment: deseq2 results
by
sajadahmad41454
• 0
thank you so much and sorry for bothering you again and again, it is urgent because it is my project deadline. i have removed that sample a…
Comment: deseq2 results
by
swbarnes2
★ 1.4k
Ask the people who made the libraires if there was anything unusual in the QC of the outlier sample. Try to figure out what biologically …
Comment: Can't post a question containing code?
by
NATASHA
• 0
did you find a solution? I´m having the same problem
Votes
A: AIC-like measure for DESeq2
Comment: Extremely small p-values using Limma for proteomic data
Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
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