Showing : Qsea • reset
7
votes
9
replies
1.6k
views
QSEA : Internal CNV analysis and cancer type-specific TCGA 450K Human Methylation Calibration Dataset
MEDIP-seq CNV TCGA450KHumanMethylationCalibrationDataset qsea PRAD
2.9 years ago rtrivedi1 ▴ 10
7
votes
18
replies
2.9k
views
Generation of QSEA TCGA 450K Human Methylation Calibration Dataset
illimina 450k methylation qsea MEDIPS TCGA
updated 3 months ago by ▴ 240 • written 7.1 years ago by ▴ 20
3
votes
8
replies
1.4k
views
Annotation using QSEA package
DNAMethylation QSEA MEDIP
2.8 years ago rtrivedi1 ▴ 10
2
votes
1
reply
489
views
QSEA: normalisation >> sequencing preference
qsea
updated 14 months ago by ▴ 240 • written 14 months ago by ▴ 20
1
vote
2
replies
939
views
Read counts between QSEA and MEDIPs
qsea medips
updated 4.2 years ago by ▴ 240 • written 4.2 years ago by • 0
1
vote
1
reply
608
views
Manual import of CNV data (created with IchorCNA) into QSEAsest wit addCNV()
ichorCNA qsea
updated 14 months ago by ▴ 240 • written 14 months ago by ▴ 20
1
vote
4
replies
1.1k
views
QSEA: choose appropriate reference for TMM normalisation with qsea::addLibraryFactors / qsea::estimateLibraryFactors
TMM edgeR qsea MEDIPS
updated 19 months ago by • 0 • written 19 months ago by ▴ 20
1
vote
2
replies
997
views
QSEA: Error while addLibraryFactors
QSEA
updated 6.2 years ago by ▴ 240 • written 6.2 years ago by • 0
1
vote
3
replies
1.3k
views
QSEA Error while loading the bam files
qsea
updated 6.2 years ago by ▴ 240 • written 6.2 years ago by • 0
0
votes
2
replies
764
views
Qsea - plotCoverage
Qsea
updated 4.0 years ago by ▴ 240 • written 4.0 years ago by ▴ 20
0
votes
3
replies
1.2k
views
QSEA: Need help on creating ROI for whole genome MeDIPSeq data
qsea
updated 6.2 years ago by ▴ 240 • written 6.2 years ago by • 0
0
votes
1
reply
639
views
No beta scores generated in samples eluted at low salt concentration (MBD-seq) which aims to capture low methylated fragments?
qsea
updated 2.9 years ago by ▴ 240 • written 3.1 years ago by • 0
0
votes
1
reply
172
views
Sample-specific methylation values using QSEA
DNAMethylation cfMeDIP-seq cfDNA qsea
updated 5 weeks ago by • 0 • written 11 weeks ago by • 0
0
votes
2
replies
831
views
MBD-seq non model species
MethylSeq ramwas MEDIPS qsea
updated 20 months ago by • 0 • written 21 months ago by ▴ 20
0
votes
1
reply
848
views
addPatternDensity in 'qsea' takes too much time
MBD-seq qsea BiocParallel
updated 3.3 years ago by ▴ 240 • written 3.3 years ago by • 0
0
votes
8
replies
1.6k
views
qsea non-TCGA 450K Human Methylation Calibration Dataset
qsea
updated 6.0 years ago by ▴ 240 • written 6.0 years ago by • 0
0
votes
1
reply
856
views
Error running the addCoverage command in QSEA with a custom BSGenome reference
qsea
updated 5.9 years ago by ▴ 240 • written 5.9 years ago by • 0
0
votes
0
replies
981
views
Indexing large chromosomes (like wheat) bam files in Rsamtools
Rsamtools QSEA MEDIPS
5.5 years ago saripalligautam86 ▴ 10
0
votes
2
replies
1.1k
views
MBDseq analysis using qsea package
qsea MBDseq
updated 4.7 years ago by ▴ 240 • written 4.7 years ago by • 0
0
votes
1
reply
680
views
Qsea - addEnrichmentParameters() - Using INPUT Samples
Qsea
updated 4.2 years ago by ▴ 240 • written 4.2 years ago by ▴ 20
20 results • Page 1 of 1
Recent ...
Replies
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0
Thank you for your comment! I'll review my code from top to bottom.
Comment: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k
So basically you are using HTML markup to set your subscripts and whatnot, and then `element_markdown` does the rest.
Comment: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k
Oh snap. Foiled again. Here it is with spaces & ge ; and & lt ;
Comment: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k
Oh LOL. My markdown got edited by the markdown editor! What is between the p and 50 in the first case is the HTML for greater than or equal…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k
Ah, good point. You could instead try ``` > library(ggtext) > keyvals.shape = c(rep(3,10), rep(2,8)) > names(keyvals.shape) = ifelse(keyva…
Votes
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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