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1
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11
views
Running ENmix with mouse methylation manifest: readidat error - Error in readmanifest(manifestfile) : length(control.line) == 1 && is.integer(cont…
ENmix
Bioconductor
46 minutes ago • updated 31 minutes ago
minardsmitha
▴ 10
0
votes
0
replies
14
views
FindOverlaps, makeVennDiagram and "others"
ATACSeq
peaks
ATAC
ChIPpeakAnno
4 hours ago • updated 1 hour ago
Raghad
• 0
0
votes
1
reply
712
views
How to arrange multiple plots into one page in NOISeq?
noiseq
RNA-seq
quality control
updated 1 hour ago by
baptiste.bidon
• 0 • written 4.7 years ago by
ag1805x
▴ 80
0
votes
1
reply
31
views
Documenting resources in an `ExperimentHub` package?
AnnotationHub
ExperimentHub
updated 2 hours ago by
James W. MacDonald
66k • written 18 hours ago by
Tim Barry
• 0
0
votes
5
replies
230
views
ChAMP installation issue
Cha
ChAMP
updated 2 hours ago by
shepherl
3.9k • written 8 days ago by
e1271094
• 0
0
votes
0
replies
13
views
recount3 problem downloading data from source sra
recount3
2 hours ago
PABLO ANTONIO
• 0
0
votes
0
replies
13
views
Conditional analysis
GENESIS
3 hours ago
SuperDad
• 0
0
votes
1
reply
33
views
Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools
limma
ExpressionData
RNASeq
edgeR
updated 4 hours ago by
James W. MacDonald
66k • written 5 hours ago by
mohammedtoufiq91
▴ 10
4
votes
3
replies
1.0k
views
BayesSpace parameters for DLPFC Visium data
BayesSpace
written 3.0 years ago by
aspangl1
▴ 30
0
votes
2
replies
227
views
Visium RNA
metaMSdata
written 8 weeks ago by
Karlison
• 0
7
votes
40
replies
5.8k
views
Ensembl plants at annotationHub?
ensembl
ensembldb
plant
arabidopsis thaliana
annotationhub
updated 8 hours ago by
Johannes Rainer
★ 2.0k • written 5.5 years ago by
Guido Hooiveld
★ 4.0k
0
votes
2
replies
63
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db
biomaRt
written 22 hours ago by
landenshanie
▴ 40
0
votes
2
replies
744
views
Help with ENmix readidat
ENmix
IlluminaHumanMethylationEPICmanifest
updated 22 hours ago by
James W. MacDonald
66k • written 2.0 years ago by
Daphna
• 0
1
vote
3
replies
110
views
LRT, more than two conditions and pairwise comparisons
DESeq2
updated 22 hours ago by
James W. MacDonald
66k • written 1 day ago by
boczniak767
▴ 720
2
votes
4
replies
191
views
DESeq2- Mysterious interaction suppresses DEGs
DESeq2
PCAplot
RNA-Seq
DesignModel
updated 1 day ago by
Michael Love
42k • written 4 days ago by
shaunpeterson
• 0
0
votes
2
replies
69
views
How to run allelic imbalance in apeglm
apeglm
updated 1 day ago by
Michael Love
42k • written 1 day ago by
euge.eugenio
▴ 20
0
votes
6
replies
558
views
Numerical differences in DESeq2 output depending on different design matrix construction
DESeq2
4 days ago • updated 1 day ago
Ken C
• 0
0
votes
1
reply
65
views
ERROR; return code from pthread_create() is 22
affy
updated 1 day ago by
James W. MacDonald
66k • written 3 days ago by
pickingastar
• 0
1
vote
1
reply
160
views
How to remove batch effect to combine RNAseq data from 2 different experiments?
BatchQC
BatchEffect
RNASeq
updated 1 day ago by
James W. MacDonald
66k • written 1 day ago by
ttt
• 0
1
vote
1
reply
58
views
Control group between 2 batches have different expression in RNAseq data
BatchQC
BatchEffect
rnaseqGene
Normalization
updated 1 day ago by
James W. MacDonald
66k • written 1 day ago by
Đình Vinh
• 0
0
votes
0
replies
18
views
Job:
Post-Doc: Development of a new method to study the distribution of the effect sizes of QTL
StatisticalMethod
Evolution
QuantitativeTrailLocus
Genetics
JobPosting
1 day ago
pierre.devillemereuil
• 0
1
vote
2
replies
99
views
Subsetting RNAseq data | voomaByGroup()
limma
3 days ago • updated 1 day ago
Anna
• 0
0
votes
5
replies
155
views
all variables in design formula must be columns in colData (Deseq2) error
BatchQC
batchinDeseq2.
columnsincolData.
2 days ago • updated 1 day ago
Galina
• 0
0
votes
1
reply
42
views
ENCORI or starBase : ceRNA data retrieval using Web API and curl
curl
microRNA
starBase
webapi
ENCORI
updated 1 day ago by
ATpoint
★ 4.1k • written 1 day ago by
V_Vibes
• 0
0
votes
0
replies
12
views
Spam:
Understanding Laser Hair Removal?
healthyControlsPresenceChecker
1 day ago
shahrozimmac
0
7
votes
6
replies
645
views
Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it does not happen in Linux
GenomAutomorphism
written 15 days ago by
robersy
• 0
0
votes
0
replies
27
views
Processing of curatedmetagenomics
curatedMetagenomicData
1 day ago
Edward
• 0
0
votes
0
replies
34
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
RNASeq
scRNAseq
2 days ago
Bibi
• 0
0
votes
0
replies
48
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets
allele_freq
biomaRt
getBM
3 days ago • updated 2 days ago
Abiologist
• 0
0
votes
3
replies
120
views
STRINGdb : error with string_db$plot_network()
STRINGdb
updated 4 days ago by
damian.szk
▴ 80 • written 4 days ago by
ninidea
• 0
0
votes
3
replies
2.1k
views
maSigPro genes from clusters
masigpro
clustering
updated 4 days ago by
anne-laure
• 0 • written 7.9 years ago by
ls299
• 0
2
votes
5
replies
235
views
Error while installing BiocManager::install("org.Vdahliae.eg.db")
org.vdahlaie.eg.db
Bioconductor
6 days ago • updated 4 days ago
Patadù
▴ 10
0
votes
4
replies
1.2k
views
News:
European Bioconductor Conference 2023 planning
Europe
Conference
EuroBioC
Events
News
updated 4 days ago by
angelaesper43
• 0 • written 19 months ago by
Maria Doyle
▴ 70
1
vote
2
replies
262
views
How can I create a eigencorplot of pca created from deseq2 object with PCAtools
DESeq2
eigencorplot
PCAtools
7 days ago • updated 4 days ago
BioinfGuru
▴ 30
0
votes
2
replies
129
views
DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set
DECIPHER
5 days ago • updated 4 days ago
makala
• 0
2
votes
2
replies
412
views
Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(paste("networks", net.suid, "tables", tbl, sep = "/"), : object 're…
RCy3
9 days ago • updated 5 days ago
Matthew Thornton
▴ 360
0
votes
0
replies
61
views
determine k during RUVSeq
RUVSeq
RUVnormalize
5 days ago
Ειρήνη
• 0
4
votes
9
replies
290
views
Can DESeq2 rlog normalized matrix reflects time course result directly?
DESeq2
timecoursedata
GeneExpression
updated 5 days ago by
ATpoint
★ 4.1k • written 6 days ago by
pangtaihin
• 0
2
votes
3
replies
147
views
Problem installing ChAMP on a MacBook
ChAMP
updated 5 days ago by
shepherl
3.9k • written 5 days ago by
Galia
• 0
0
votes
0
replies
62
views
ReactomeGSA for RNASeq
ReactomeGSA
BatchEffect
RNASeqData
5 days ago
Shaimaa Gamal
• 0
0
votes
0
replies
15
views
Spam:
Unveiling Unmatched Best Custom Patches
SIMAT
5 days ago
oliverelijhan
0
0
votes
0
replies
92
views
ChIPseeker peak_Profile_Heatmap color palette
ChIPseeker
5 days ago
Anton01
• 0
10
votes
10
replies
1.9k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq
rnaseq
updated 5 days ago by
Leonard Goldstein
▴ 220 • written 6.7 years ago by
Sylvain Foisy
▴ 80
0
votes
0
replies
55
views
GAGE results interpretation with gene-foldchange as input for cases of all-negative foldchange
GO
KEGG
gage
pathview
5 days ago
danalvoronov
▴ 10
0
votes
0
replies
56
views
query regarding how to apply WGCNA on replicates
replicatesRNAseq
WGCNA
5 days ago
k200987
• 0
2
votes
3
replies
154
views
How to correctly adjust for gender in edgeR
design
glm
edgeR
updated 5 days ago by
Gordon Smyth
50k • written 6 days ago by
Guillermo
• 0
0
votes
2
replies
756
views
Query regarding phyloseq object construct with QIIME output
phyloseq
microbiome
Metagenomics
updated 5 days ago by
Rosso
• 0 • written 11 months ago by
abhisek001
• 0
0
votes
4
replies
154
views
error running enricher from clusterprofiler
clusterProfiler
cluster
6 days ago • updated 5 days ago
Yael
• 0
4
votes
9
replies
3.1k
views
Create protein sequences including variants from a VCF file
VariantAnnotation
customProDB
updated 6 days ago by
Yun
• 0 • written 5.2 years ago by
daniel.magnus.bader
▴ 50
1
vote
2
replies
143
views
Can log2cpm be used for proteomics data normalization?
metaMSdata
7 days ago • updated 6 days ago
Daniel
• 0
1,000 results • Page
1 of 20
Recent ...
Replies
Answer: Running ENmix with mouse methylation manifest: readidat error - Error in readman
by
minardsmitha
▴ 10
Well it turns out there is a typo in the manifest file name. This particular issue is resolved by correcting the typo. A new error now …
Answer: Documenting resources in an `ExperimentHub` package?
by
James W. MacDonald
66k
The easiest way to do that IMO is to use emacs/ESS (or I believe there is some newfangled thing called RStudio? Not personally familiar, bu…
Comment: ChAMP installation issue
by
shepherl
3.9k
We are still waiting for the goseq to respond to our requests but will take action next week if it is not resolved. ChAMP is currently una…
Comment: How to arrange multiple plots into one page in NOISeq?
by
baptiste.bidon
• 0
After facing the same problem, I realise that you can direct your plot in the matrix with the *par()* option `par(..., mfg = c(1,2))`. If i…
Comment: ChAMP installation issue
by
Tahirah
• 0
Hello. Could you please share how you managed to install ChAMP in R 4.4.0? I also have R 4.4.0 and Bioconductor 3.19 version and ChAMP fail…
Votes
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
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