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Showing :
qsea
•
reset
7
votes
9
replies
687
views
QSEA : Internal CNV analysis and cancer type-specific TCGA 450K Human Methylation Calibration Dataset
MEDIP-seq
CNV
TCGA450KHumanMethylationCalibrationDataset
qsea
PRAD
12 months ago • updated 11 months ago
rtrivedi1
▴ 10
7
votes
17
replies
1.5k
views
Generation of QSEA TCGA 450K Human Methylation Calibration Dataset
illimina 450k methylation
qsea
MEDIPS
TCGA
updated 21 months ago by
Matthias Lienhard
▴ 220 • written 5.1 years ago by
justinburgener
▴ 20
3
votes
8
replies
463
views
Annotation using QSEA package
DNAMethylation
QSEA
MEDIP
11 months ago • updated 10 months ago
rtrivedi1
▴ 10
1
vote
2
replies
538
views
QSEA: Error while addLibraryFactors
QSEA
updated 4.2 years ago by
Matthias Lienhard
▴ 220 • written 4.2 years ago by
geekyvt
• 0
1
vote
3
replies
774
views
QSEA Error while loading the bam files
qsea
updated 4.2 years ago by
Matthias Lienhard
▴ 220 • written 4.2 years ago by
geekyvt
• 0
0
votes
1
reply
453
views
Error running the addCoverage command in QSEA with a custom BSGenome reference
qsea
updated 3.9 years ago by
Matthias Lienhard
▴ 220 • written 4.0 years ago by
apt.university
• 0
0
votes
0
replies
435
views
Indexing large chromosomes (like wheat) bam files in Rsamtools
Rsamtools
QSEA
MEDIPS
3.6 years ago
saripalligautam86
▴ 10
0
votes
2
replies
405
views
MBDseq analysis using qsea package
qsea
MBDseq
updated 2.7 years ago by
Matthias Lienhard
▴ 220 • written 2.7 years ago by
LNathanson
• 0
0
votes
1
reply
265
views
Qsea - addEnrichmentParameters() - Using INPUT Samples
Qsea
updated 2.2 years ago by
Matthias Lienhard
▴ 220 • written 2.2 years ago by
gaurav4thareja
▴ 20
0
votes
3
replies
631
views
QSEA: Need help on creating ROI for whole genome MeDIPSeq data
qsea
updated 4.2 years ago by
Matthias Lienhard
▴ 220 • written 4.2 years ago by
geekyvt
• 0
0
votes
2
replies
271
views
Qsea - plotCoverage
Qsea
updated 2.1 years ago by
Matthias Lienhard
▴ 220 • written 2.1 years ago by
gaurav4thareja
▴ 20
0
votes
1
reply
344
views
addPatternDensity in 'qsea' takes too much time
MBD-seq
qsea
BiocParallel
updated 16 months ago by
Matthias Lienhard
▴ 220 • written 16 months ago by
mbk0asis
• 0
0
votes
1
reply
243
views
No beta scores generated in samples eluted at low salt concentration (MBD-seq) which aims to capture low methylated fragments?
qsea
updated 12 months ago by
Matthias Lienhard
▴ 220 • written 14 months ago by
el466
• 0
0
votes
2
replies
323
views
Read counts between QSEA and MEDIPs
qsea
medips
updated 2.2 years ago by
Matthias Lienhard
▴ 220 • written 2.2 years ago by
Simon Pearce
• 0
0
votes
8
replies
860
views
qsea non-TCGA 450K Human Methylation Calibration Dataset
qsea
updated 4.0 years ago by
Matthias Lienhard
▴ 220 • written 4.0 years ago by
wildist
• 0
15 results • Page
1 of 1
Recent ...
Replies
Answer: Using featureCounts and downloading Rsubread
by
James W. MacDonald
59k
You need to tell `BiocManager;;install` that you want to install the `Rsubread` package. ``` BiocManager::install("Rsubread") library(…
Comment: featureCounts: 0% successfully assigned fragments
by
KMS
• 0
Dear ATpoint I am exactly looking for read/gene count from BAM/SAM file either through ht-seq or feature count feature count giving me 0% s…
Answer: Get MANE transcripts from TxDb.Hsapiens.UCSC.hg38.knownGene
by
James W. MacDonald
59k
There is the ncbiRefSeqSelect table that has the MANE and RefSeq Select transcripts. It's not just the MANE though. ``` > z <- makeTxDb…
Comment: Handling of missing values in limma
by
AyHi
• 0
Thank you, Gordon, for your reply. I used sum(is.na(lmfit)) after lmFit, but somewhat it indicated there was no NA observations even when…
Comment: merging VCF files
by
lesefo6448
• 0
You can use this VCF Merger Software if you want to Merge VCF files into one file. this Software easily Merge your multiple VCF files with…
Votes
Answer: Load packages when using BatchtoolsParam
Comment: Load packages when using BatchtoolsParam
Answer: edgeR: the F-statistics changed after removing lowly expressed gene
Answer: edgeR: the F-statistics changed after removing lowly expressed gene
A: DESeq2: thousands of NA for pvalues?
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Matthew McCormack
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