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QSEA
•
reset
0
votes
1
reply
302
views
QSEA:Error in h(simpleError(msg, call))
qsea
10 weeks ago
kf
• 0
0
votes
2
replies
353
views
QSEA- Extraction of Normalized methylation across the samples
qsea
ngsReports
correlation
written 6 months ago by
Researcher
• 0
0
votes
1
reply
384
views
Sample-specific methylation values using QSEA
DNAMethylation
cfMeDIP-seq
cfDNA
qsea
updated 8 months ago by
Simon Pearce
• 0 • written 9 months ago by
User3088
• 0
9
votes
18
replies
3.6k
views
Generation of QSEA TCGA 450K Human Methylation Calibration Dataset
illimina 450k methylation
qsea
MEDIPS
TCGA
updated 10 months ago by
Matthias Lienhard
▴ 280 • written 7.6 years ago by
justinburgener
▴ 20
2
votes
1
reply
667
views
QSEA: normalisation >> sequencing preference
qsea
updated 21 months ago by
Matthias Lienhard
▴ 280 • written 21 months ago by
a.riediger
▴ 20
1
vote
1
reply
926
views
Manual import of CNV data (created with IchorCNA) into QSEAsest wit addCNV()
ichorCNA
qsea
updated 21 months ago by
Matthias Lienhard
▴ 280 • written 21 months ago by
a.riediger
▴ 20
1
vote
4
replies
1.4k
views
QSEA: choose appropriate reference for TMM normalisation with qsea::addLibraryFactors / qsea::estimateLibraryFactors
TMM
edgeR
qsea
MEDIPS
updated 2.2 years ago by
Simon Pearce
• 0 • written 2.2 years ago by
a.riediger
▴ 20
0
votes
2
replies
1.0k
views
MBD-seq non model species
MethylSeq
ramwas
MEDIPS
qsea
updated 2.3 years ago by
Simon Pearce
• 0 • written 2.3 years ago by
Marianna
▴ 20
3
votes
8
replies
1.7k
views
Annotation using QSEA package
DNAMethylation
QSEA
MEDIP
3.4 years ago
rtrivedi1
▴ 10
7
votes
9
replies
2.0k
views
QSEA : Internal CNV analysis and cancer type-specific TCGA 450K Human Methylation Calibration Dataset
MEDIP-seq
CNV
TCGA450KHumanMethylationCalibrationDataset
qsea
PRAD
3.5 years ago
rtrivedi1
▴ 10
0
votes
1
reply
802
views
No beta scores generated in samples eluted at low salt concentration (MBD-seq) which aims to capture low methylated fragments?
qsea
updated 3.5 years ago by
Matthias Lienhard
▴ 280 • written 3.7 years ago by
el466
• 0
1
vote
1
reply
1.2k
views
addPatternDensity in 'qsea' takes too much time
MBD-seq
qsea
BiocParallel
updated 3.9 years ago by
Matthias Lienhard
▴ 280 • written 3.9 years ago by
mbk0asis
• 0
0
votes
2
replies
935
views
Qsea - plotCoverage
Qsea
updated 4.6 years ago by
Matthias Lienhard
▴ 280 • written 4.6 years ago by
gaurav4thareja
▴ 20
1
vote
2
replies
1.2k
views
Read counts between QSEA and MEDIPs
qsea
medips
updated 4.8 years ago by
Matthias Lienhard
▴ 280 • written 4.8 years ago by
Simon Pearce
• 0
0
votes
1
reply
836
views
Qsea - addEnrichmentParameters() - Using INPUT Samples
Qsea
updated 4.8 years ago by
Matthias Lienhard
▴ 280 • written 4.8 years ago by
gaurav4thareja
▴ 20
1
vote
2
replies
1.4k
views
MBDseq analysis using qsea package
qsea
MBDseq
updated 5.3 years ago by
Matthias Lienhard
▴ 280 • written 5.3 years ago by
LNathanson
• 0
0
votes
0
replies
1.2k
views
Indexing large chromosomes (like wheat) bam files in Rsamtools
Rsamtools
QSEA
MEDIPS
6.1 years ago
saripalligautam86
▴ 10
0
votes
1
reply
974
views
Error running the addCoverage command in QSEA with a custom BSGenome reference
qsea
updated 6.5 years ago by
Matthias Lienhard
▴ 280 • written 6.5 years ago by
apt.university
• 0
0
votes
8
replies
1.8k
views
qsea non-TCGA 450K Human Methylation Calibration Dataset
qsea
updated 6.6 years ago by
Matthias Lienhard
▴ 280 • written 6.6 years ago by
wildist
• 0
0
votes
3
replies
1.4k
views
QSEA: Need help on creating ROI for whole genome MeDIPSeq data
qsea
updated 6.8 years ago by
Matthias Lienhard
▴ 280 • written 6.8 years ago by
geekyvt
• 0
1
vote
2
replies
1.2k
views
QSEA: Error while addLibraryFactors
QSEA
updated 6.8 years ago by
Matthias Lienhard
▴ 280 • written 6.8 years ago by
geekyvt
• 0
1
vote
3
replies
1.5k
views
QSEA Error while loading the bam files
qsea
updated 6.8 years ago by
Matthias Lienhard
▴ 280 • written 6.8 years ago by
geekyvt
• 0
22 results • Page
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Answer: Deseq2 res Function
by
Michael Love
43k
> Does this mean the young and KO groups were numerators and denominators in the analysis, respectively? Read over the vignette and work…
Answer: ANOVA like approach of edgeR
by
Gordon Smyth
51k
You need to clarify whether interactions are present for the two factors in your study. In the two factors do not interact, then the code y…
Answer: Create Illmina bead summary data
by
Gordon Smyth
51k
GenomeStudio produces IDAT files that you can read using the `read.idat` function in limma. That is the recommended way to read GenomeStudi…
Comment: Help with RSEM counts: do I transpose matrix?
by
NB
• 0
OK thank you.
Comment: Help with RSEM counts: do I transpose matrix?
by
James W. MacDonald
67k
You can ask here, but please read the `DESeq2` vignette first, which should answer most questions.
Votes
Answer: Deseq2 res Function
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification
Answer: ANOVA like approach of edgeR
Answer: ANOVA like approach of edgeR
Comment: ANOVA like approach of edgeR
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