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qsea
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0
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240
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Batch Correction while implementing QSEA package
qsea
MEDIPS
MEDIPSData
DNAMethylation
8 months ago
User3088
• 0
0
votes
1
reply
590
views
QSEA:Error in h(simpleError(msg, call))
qsea
12 months ago
kf
• 0
1
vote
2
replies
614
views
QSEA- Extraction of Normalized methylation across the samples
qsea
ngsReports
correlation
written 16 months ago by
Researcher
▴ 10
0
votes
2
replies
711
views
Sample-specific methylation values using QSEA
DNAMethylation
cfMeDIP-seq
cfDNA
qsea
20 months ago • updated 8 months ago
User3088
• 0
9
votes
18
replies
4.5k
views
Generation of QSEA TCGA 450K Human Methylation Calibration Dataset
illimina 450k methylation
qsea
MEDIPS
TCGA
updated 21 months ago by
Matthias Lienhard
▴ 280 • written 8.5 years ago by
justinburgener
▴ 20
2
votes
1
reply
860
views
QSEA: normalisation >> sequencing preference
qsea
updated 2.6 years ago by
Matthias Lienhard
▴ 280 • written 2.6 years ago by
a.riediger
▴ 20
1
vote
1
reply
1.3k
views
Manual import of CNV data (created with IchorCNA) into QSEAsest wit addCNV()
ichorCNA
qsea
updated 2.6 years ago by
Matthias Lienhard
▴ 280 • written 2.6 years ago by
a.riediger
▴ 20
1
vote
4
replies
1.8k
views
QSEA: choose appropriate reference for TMM normalisation with qsea::addLibraryFactors / qsea::estimateLibraryFactors
TMM
edgeR
qsea
MEDIPS
updated 3.0 years ago by
Simon Pearce
• 0 • written 3.0 years ago by
a.riediger
▴ 20
0
votes
2
replies
1.3k
views
MBD-seq non model species
MethylSeq
ramwas
MEDIPS
qsea
updated 3.1 years ago by
Simon Pearce
• 0 • written 3.2 years ago by
Marianna
▴ 20
3
votes
8
replies
2.0k
views
Annotation using QSEA package
DNAMethylation
QSEA
MEDIP
4.3 years ago
rtrivedi1
▴ 10
7
votes
9
replies
2.5k
views
QSEA : Internal CNV analysis and cancer type-specific TCGA 450K Human Methylation Calibration Dataset
MEDIP-seq
CNV
TCGA450KHumanMethylationCalibrationDataset
qsea
PRAD
4.4 years ago • updated 4.3 years ago
rtrivedi1
▴ 10
0
votes
1
reply
991
views
No beta scores generated in samples eluted at low salt concentration (MBD-seq) which aims to capture low methylated fragments?
qsea
updated 4.4 years ago by
Matthias Lienhard
▴ 280 • written 4.5 years ago by
el466
• 0
1
vote
1
reply
1.4k
views
addPatternDensity in 'qsea' takes too much time
MBD-seq
qsea
BiocParallel
updated 4.7 years ago by
Matthias Lienhard
▴ 280 • written 4.7 years ago by
mbk0asis
• 0
0
votes
2
replies
1.1k
views
Qsea - plotCoverage
Qsea
updated 5.5 years ago by
Matthias Lienhard
▴ 280 • written 5.5 years ago by
gaurav4thareja
▴ 20
1
vote
2
replies
1.5k
views
Read counts between QSEA and MEDIPs
qsea
medips
updated 5.6 years ago by
Matthias Lienhard
▴ 280 • written 5.6 years ago by
Simon Pearce
• 0
0
votes
1
reply
1.0k
views
Qsea - addEnrichmentParameters() - Using INPUT Samples
Qsea
updated 5.6 years ago by
Matthias Lienhard
▴ 280 • written 5.6 years ago by
gaurav4thareja
▴ 20
1
vote
4
replies
2.1k
views
MBDseq analysis using qsea package
qsea
MBDseq
updated 8 months ago by
Lukas
▴ 20 • written 6.1 years ago by
LNathanson
• 0
0
votes
0
replies
1.4k
views
Indexing large chromosomes (like wheat) bam files in Rsamtools
Rsamtools
QSEA
MEDIPS
7.0 years ago
saripalligautam86
▴ 10
0
votes
1
reply
1.1k
views
Error running the addCoverage command in QSEA with a custom BSGenome reference
qsea
updated 7.3 years ago by
Matthias Lienhard
▴ 280 • written 7.3 years ago by
apt.university
• 0
0
votes
8
replies
2.2k
views
qsea non-TCGA 450K Human Methylation Calibration Dataset
qsea
updated 7.4 years ago by
Matthias Lienhard
▴ 280 • written 7.4 years ago by
wildist
• 0
0
votes
3
replies
1.6k
views
QSEA: Need help on creating ROI for whole genome MeDIPSeq data
qsea
updated 7.6 years ago by
Matthias Lienhard
▴ 280 • written 7.6 years ago by
geekyvt
• 0
1
vote
2
replies
1.4k
views
QSEA: Error while addLibraryFactors
QSEA
updated 7.6 years ago by
Matthias Lienhard
▴ 280 • written 7.6 years ago by
geekyvt
• 0
1
vote
3
replies
1.7k
views
QSEA Error while loading the bam files
qsea
updated 7.6 years ago by
Matthias Lienhard
▴ 280 • written 7.6 years ago by
geekyvt
• 0
23 results • Page
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Comment: incomplete imputation of missing values with LEA impute() function
by
Gordon Smyth
53k
Nadia, please tag your question with the name of the package ("LEA") that you are asking about. "impute" is the name of a different Biocond…
Comment: Sharing a collection of datasets in ExperimentHub
by
Aaron Lun
★ 29k
FYI the **scRNAseq** packages uses a non-ExperimentHub storage platform, see [here](https://github.com/ArtifactDB/gypsum-worker) for more d…
Comment: Error Loading Experiment from SimBenchData Package
by
ATpoint
★ 4.9k
Is the Seurat package installed? The error somewhat suggests that it could be related, and at https://www.bioconductor.org/packages/release…
Answer: Help with defining groups
by
Gordon Smyth
53k
Defining sample groups is separate to reading in the DIA-NN data, because the sample conditions and covariates are not necessarily coded in…
Comment: Sharing a collection of datasets in ExperimentHub
by
Peter Hickey
▴ 760
The [**scRNAseq**](https://bioconductor.org/packages/scRNAseq/) package ([source on GitHub](https://github.com/LTLA/scRNAseq)) might serve …
Votes
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
Answer: ordinary t from limma [was: How would I normally compare swirl?]
Comment: readDNAStringSet with non DNA characters
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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