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MEDIP-seq
•
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 • updated 2.8 years ago
rtrivedi1
▴ 10
16
votes
9
replies
6.4k
views
Diffbind: edgeR or DESeq2 ?
diffbind
medip-seq
edger
deseq2
updated 6.4 years ago by
Rory Stark
★ 5.1k • written 8.0 years ago by
florian.noack
▴ 60
1
vote
6
replies
1.8k
views
MEDIP: Problem with MEDIPS.createSet
medips
bsgenome
medip-seq
updated 6.0 years ago by
Lukas Chavez
▴ 570 • written 6.0 years ago by
vjain
• 0
0
votes
6
replies
1.9k
views
MeDIPS: warning when using "ttest" settings in MEDIPS.meth
R
medips
medip-seq
7.6 years ago • updated 6.8 years ago
stb
• 0
3
votes
5
replies
1.6k
views
CNV parameter not working - MEDIPS
medips
medip-seq
error
lukas
updated 6.9 years ago by
Matthias Lienhard
▴ 240 • written 6.9 years ago by
anupriyaverma1408
• 0
4
votes
5
replies
1.2k
views
Extracting normalized counts in MEDIPS
MEDIPS
MeDIP-seq
updated 2.5 years ago by
Lukas
▴ 20 • written 4.4 years ago by
lshepard
▴ 40
1
vote
2
replies
938
views
Comparing more than 2 experimental groups with MEDIPS?
medips
medip-seq
dna methylation
dmr analysis
updated 5.3 years ago by
Lukas Chavez
▴ 570 • written 5.3 years ago by
mtefit
• 0
1
vote
1
reply
1.2k
views
Window size for MEDIPS
medips
medip-seq
peak finding
luckas
updated 6.9 years ago by
Lukas Chavez
▴ 570 • written 6.9 years ago by
anupriyaverma1408
• 0
1
vote
1
reply
1.5k
views
MeDIPS and use of the 'bwa' parameter
R
medip-seq
medips
bwa
updated 7.6 years ago by
Lukas Chavez
▴ 570 • written 7.6 years ago by
stb
• 0
0
votes
1
reply
1.0k
views
How does the 'paired' argument works in MeDIPS 1.23.2
medips
medip-seq
R
pair-end reads
updated 7.5 years ago by
Lukas Chavez
▴ 570 • written 7.5 years ago by
stb
• 0
0
votes
1
reply
1.1k
views
Insertion size when using 'paired' in MEDIPS.createSet()
medips
R
medip-seq
pair-end reads
updated 7.3 years ago by
Lukas Chavez
▴ 570 • written 7.3 years ago by
stb
• 0
0
votes
0
replies
795
views
All fragments/sequences captured using MeDIP are methylated?
medip-seq
methylation
CpGs
5.4 years ago
saripalligautam86
▴ 10
0
votes
0
replies
747
views
Calculating short read coverage at genome wide windows for create.set- MEDIPS
medip-seq
createset
updated 5.2 years ago by
Bioconductor Community
0 • written 5.3 years ago by
oussama.badad
• 0
0
votes
0
replies
1.3k
views
count overlapping reads for CpG islands and annotate with gene names?
annotation
chippeakanno
rattus norvegicus
medip-seq
8.1 years ago
Vang Le
▴ 80
0
votes
0
replies
496
views
How to use MeDIPS with BEDPE format input?
R
medip-seq
MEDIPS
13 months ago
Luomeng
• 0
15 results • Page
1 of 1
Recent ...
Replies
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
Votes
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
Circumvent creating .ff files in the working directory when using genotype.Illumina() function
Answer: Problem with maplot {affy} method when using rma {affy} method output as its inp
Answer: Microarray Limma Model fitting and DEG
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