0
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1
reply
39
views
recount3 problem downloading data from source sra
recount3
updated 5 hours ago by ★ 1.0k • written 8 hours ago by • 0
0
votes
1
reply
52
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Running ENmix with mouse methylation manifest: readidat error - Error in readmanifest(manifestfile) : length(control.line) == 1 && is.integer(cont…
ENmix Bioconductor
6 hours ago minardsmitha ▴ 10
0
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1
reply
49
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Documenting resources in an `ExperimentHub` package?
AnnotationHub ExperimentHub
updated 8 hours ago by 66k • written 1 day ago by • 0
0
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0
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19
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Conditional analysis
GENESIS
9 hours ago SuperDad • 0
0
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1
reply
40
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Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools limma ExpressionData RNASeq edgeR
updated 10 hours ago by 66k • written 10 hours ago by ▴ 10
0
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0
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19
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FindOverlaps, makeVennDiagram and "others"
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10 hours ago • updated 7 hours ago Raghad • 0
0
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2
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69
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Errors in chromosome annotation-biomaRt
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written 1 day ago by ▴ 40
0
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2
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72
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How to run allelic imbalance in apeglm
apeglm
updated 1 day ago by 42k • written 2 days ago by ▴ 20
0
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1
reply
68
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ERROR; return code from pthread_create() is 22
affy
updated 1 day ago by 66k • written 3 days ago by • 0
1
vote
3
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113
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LRT, more than two conditions and pairwise comparisons
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updated 1 day ago by 66k • written 2 days ago by ▴ 720
1
vote
1
reply
168
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How to remove batch effect to combine RNAseq data from 2 different experiments?
BatchQC BatchEffect RNASeq
updated 1 day ago by 66k • written 1 day ago by • 0
1
vote
1
reply
68
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Control group between 2 batches have different expression in RNAseq data
BatchQC BatchEffect rnaseqGene Normalization
updated 1 day ago by 66k • written 1 day ago by • 0
0
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0
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20
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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
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106
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Subsetting RNAseq data | voomaByGroup()
limma
3 days ago • updated 1 day ago Anna • 0
0
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1
reply
47
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ENCORI or starBase : ceRNA data retrieval using Web API and curl
curl microRNA starBase webapi ENCORI
updated 1 day ago by ★ 4.1k • written 1 day ago by • 0
0
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0
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12
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Spam: Understanding Laser Hair Removal?
healthyControlsPresenceChecker
1 day ago shahrozimmac 0
0
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0
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29
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Processing of curatedmetagenomics
curatedMetagenomicData
1 day ago Edward • 0
7
votes
6
replies
646
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Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it does not happen in Linux
GenomAutomorphism
written 16 days ago by • 0
0
votes
5
replies
158
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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
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0
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36
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scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
RNASeq scRNAseq
2 days ago Bibi • 0
0
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6
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563
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Numerical differences in DESeq2 output depending on different design matrix construction
DESeq2
4 days ago • updated 1 day ago Ken C • 0
2
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4
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193
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DESeq2- Mysterious interaction suppresses DEGs
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updated 1 day ago by 42k • written 4 days ago by • 0
0
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0
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49
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Minor allele data from grch38 giving NAs from getBM ?
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3 days ago • updated 2 days ago Abiologist • 0
0
votes
3
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123
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STRINGdb : error with string_db$plot_network()
STRINGdb
updated 4 days ago by ▴ 80 • written 4 days ago by • 0
0
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2
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133
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DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set
DECIPHER
5 days ago makala • 0
2
votes
2
replies
415
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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
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63
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determine k during RUVSeq
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5 days ago Ειρήνη • 0
2
votes
3
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153
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Problem installing ChAMP on a MacBook
ChAMP
updated 5 days ago by 3.9k • written 5 days ago by • 0
0
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0
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64
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ReactomeGSA for RNASeq
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5 days ago Shaimaa Gamal • 0
0
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0
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15
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Spam: Unveiling Unmatched Best Custom Patches
SIMAT
5 days ago oliverelijhan 0
0
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0
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93
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ChIPseeker peak_Profile_Heatmap color palette
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5 days ago Anton01 • 0
0
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0
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57
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GAGE results interpretation with gene-foldchange as input for cases of all-negative foldchange
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6 days ago danalvoronov ▴ 10
0
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0
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58
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query regarding how to apply WGCNA on replicates
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6 days ago k200987 • 0
2
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5
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244
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Error while installing BiocManager::install("org.Vdahliae.eg.db")
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6 days ago • updated 4 days ago Patadù ▴ 10
0
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4
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160
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error running enricher from clusterprofiler
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6 days ago Yael • 0
2
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3
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156
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How to correctly adjust for gender in edgeR
design glm edgeR
updated 6 days ago by 50k • written 6 days ago by • 0
2
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1
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92
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How to design DEXSeq formula for multiple variables
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updated 6 days ago by ★ 1.9k • written 8 days ago by • 0
4
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9
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294
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Can DESeq2 rlog normalized matrix reflects time course result directly?
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updated 5 days ago by ★ 4.1k • written 6 days ago by • 0
0
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0
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49
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Difference in Contrast in DiffBind
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6 days ago zzrammal • 0
1
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2
replies
124
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Erroe when using makeOrgPackageFromNCBI()
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6 days ago Patadù ▴ 10
10
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10
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1.9k
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SGSeq: moving toward diffex from SGSeq analysis
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0
votes
3
replies
141
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Assymetric MA plot with no overall trend
DESeq2 DifferentialExpression
updated 6 days ago by 42k • written 7 days ago by • 0
1
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2
replies
149
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Can log2cpm be used for proteomics data normalization?
metaMSdata
7 days ago • updated 6 days ago Daniel • 0
1
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2
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263
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How can I create a eigencorplot of pca created from deseq2 object with PCAtools
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8 days ago • updated 5 days ago BioinfGuru ▴ 30
0
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5
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262
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ChAMP installation issue
Cha ChAMP
updated 8 hours ago by 3.9k • written 8 days ago by • 0
4
votes
5
replies
344
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Method to find pathways different between 2 groups
fgsea GSVA CAMERA
15 days ago • updated 6 days ago Chris ▴ 10
1
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2
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210
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Citation for edgeR user guide
edgeR
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0
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4
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1.2k
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News: European Bioconductor Conference 2023 planning
Europe Conference EuroBioC Events News
updated 4 days ago by • 0 • written 19 months ago by ▴ 70
0
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2
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756
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Query regarding phyloseq object construct with QIIME output
phyloseq microbiome Metagenomics
updated 6 days ago by • 0 • written 11 months ago by • 0
8
votes
41
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5.8k
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Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 1 hour ago by • 0 • written 5.5 years ago by ★ 4.0k
57 results • Page 1 of 2
Recent ...
Replies
Comment: Ensembl plants at annotationHub? by Daniele • 0
Thank you so much!
Answer: recount3 problem downloading data from source sra by Leonardo Collado Torres ★ 1.0k
Hi, I wasn't able to reproduce the issue on both bioc 3.19 (current release version) and 3.18 (closer to your session info). My guess is…
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…
Votes
Comment: Ensembl plants at annotationHub?
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
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