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Showing :
medips
•
reset
0
votes
2
replies
265
views
MEDIPS - error using MEDIPS.CpGenrich
MEDIPS
3 months ago
Ian
• 0
0
votes
0
replies
199
views
MEDIPS.meth output
MEDIPS
edgeR
l
8 months ago
Aranzazu
• 0
0
votes
0
replies
242
views
MEDIPS - export wig with normalized counts
MEDIPS
15 months ago
lshepard
▴ 40
7
votes
17
replies
1.5k
views
Generation of QSEA TCGA 450K Human Methylation Calibration Dataset
illimina 450k methylation
qsea
MEDIPS
TCGA
updated 22 months ago by
Matthias Lienhard
▴ 220 • written 5.2 years ago by
justinburgener
▴ 20
2
votes
4
replies
326
views
MEDIPS results differ with sample ordering
MEDIPS
edgeR
updated 2.0 years ago by
Lukas Chavez
▴ 570 • written 2.3 years ago by
keegan
▴ 60
2
votes
1
reply
372
views
MEDIPS - Error in MEDIPS.CpGenrich
MEDIPS
updated 2.2 years ago by
Lukas Chavez
▴ 570 • written 2.2 years ago by
gaurav4thareja
▴ 20
1
vote
1
reply
298
views
MEDIPS.CpGenrich now that RangedData is deprecated
MEDIPS
RangedData
GenomicRanges
updated 2.2 years ago by
Lukas Chavez
▴ 570 • written 2.2 years ago by
emham
• 0
0
votes
2
replies
339
views
Read counts between QSEA and MEDIPs
qsea
medips
updated 2.3 years ago by
Matthias Lienhard
▴ 220 • written 2.3 years ago by
Simon Pearce
• 0
4
votes
5
replies
522
views
Extracting normalized counts in MEDIPS
MEDIPS
MeDIP-seq
updated 8 months ago by
Lukas
▴ 20 • written 2.5 years ago by
lshepard
▴ 40
0
votes
0
replies
205
views
Why does MEDIPS only import read 1 when paired=TRUE for MEDIPS.createSet()function ?
#MEDIPS
MEDIPS
2.6 years ago
agm
• 0
1
vote
1
reply
466
views
sva correction for MEDIPS
MEDIPS
svaseq
sva
updated 3.3 years ago by
Lukas Chavez
▴ 570 • written 3.3 years ago by
tofukaj
• 0
0
votes
0
replies
524
views
error importing bam file for MEDIPS analysis
MEDIPS
bamfile
updated 3.4 years ago by
Bioconductor Community
0 • written 3.6 years ago by
oussama.badad
• 0
1
vote
2
replies
476
views
Comparing more than 2 experimental groups with MEDIPS?
medips
medip-seq
dna methylation
dmr analysis
updated 3.5 years ago by
Lukas Chavez
▴ 570 • written 3.5 years ago by
mtefit
• 0
0
votes
2
replies
606
views
create.set on MEDIPS
medips
createset
updated 3.5 years ago by
Lukas Chavez
▴ 570 • written 3.5 years ago by
oussama.badad
• 0
0
votes
4
replies
606
views
CpG density in MEDIPS
CpG
MEDIPS
3.6 years ago
saripalligautam86
▴ 10
0
votes
0
replies
438
views
Indexing large chromosomes (like wheat) bam files in Rsamtools
Rsamtools
QSEA
MEDIPS
3.6 years ago
saripalligautam86
▴ 10
0
votes
3
replies
558
views
Coupling set error in MEDIPS
medips
coupling set error
cpg density
3.6 years ago
saripalligautam86
▴ 10
0
votes
0
replies
327
views
CouplingSet error in MeDIPS
MEDIPS
coupling set error
3.6 years ago
saripalligautam86
▴ 10
0
votes
3
replies
645
views
MEDIPS - Annotation output explanation
MEDIPS
Output
4.1 years ago
vjain
• 0
1
vote
6
replies
963
views
MEDIP: Problem with MEDIPS.createSet
medips
bsgenome
medip-seq
updated 4.2 years ago by
Lukas Chavez
▴ 570 • written 4.2 years ago by
vjain
• 0
3
votes
1
reply
660
views
RMS question in MEDIPS
RMS
RPKM
MEDIPS
updated 4.3 years ago by
Lukas Chavez
▴ 570 • written 4.3 years ago by
enrique.yeh
▴ 10
0
votes
6
replies
1.2k
views
MeDIPS: warning when using "ttest" settings in MEDIPS.meth
R
medips
medip-seq
5.8 years ago • updated 5.0 years ago
stb
• 0
3
votes
5
replies
944
views
CNV parameter not working - MEDIPS
medips
medip-seq
error
lukas
updated 5.0 years ago by
Matthias Lienhard
▴ 220 • written 5.0 years ago by
anupriyaverma1408
• 0
1
vote
1
reply
784
views
Window size for MEDIPS
medips
medip-seq
peak finding
luckas
updated 5.0 years ago by
Lukas Chavez
▴ 570 • written 5.0 years ago by
anupriyaverma1408
• 0
0
votes
2
replies
1.1k
views
MeQA and MEDIPS
bioconductor
meqa
medips
updated 5.1 years ago by
palchamy
• 0 • written 6.0 years ago by
manish.kumar
• 0
0
votes
1
reply
623
views
How does the function MEDIPS.CpGenrich work?
medips
updated 5.1 years ago by
Lukas Chavez
▴ 570 • written 5.1 years ago by
stb
• 0
0
votes
1
reply
925
views
Error raised during execution of MEDIPS package
medips
updated 5.2 years ago by
Lukas Chavez
▴ 570 • written 5.2 years ago by
pinky_pinkpinky
• 0
0
votes
1
reply
710
views
MEDIPS: case study with different replicate numbers of control and case
MEDIPS
updated 5.4 years ago by
Lukas Chavez
▴ 570 • written 5.4 years ago by
fmhsu0114
• 0
0
votes
1
reply
660
views
Insertion size when using 'paired' in MEDIPS.createSet()
medips
R
medip-seq
pair-end reads
updated 5.5 years ago by
Lukas Chavez
▴ 570 • written 5.5 years ago by
stb
• 0
0
votes
1
reply
706
views
How to make my custom genome available in MEDIPS?
MEDIPS
5.6 years ago
Vijay Lakhujani
• 0
0
votes
1
reply
832
views
similar problem installing MEDIPS on Ubuntu 14.04
installation
medips
5.6 years ago
avilella
▴ 10
0
votes
1
reply
765
views
MEDIPS - do reads without CG's get filtered out prior to analysis?
medips
updated 5.6 years ago by
Lukas Chavez
▴ 570 • written 5.6 years ago by
chu_shirley
• 0
0
votes
1
reply
642
views
How does the 'paired' argument works in MeDIPS 1.23.2
medips
medip-seq
R
pair-end reads
updated 5.7 years ago by
Lukas Chavez
▴ 570 • written 5.7 years ago by
stb
• 0
0
votes
1
reply
769
views
Gene Symbol Annotation
medips
updated 5.8 years ago by
Lukas Chavez
▴ 570 • written 5.8 years ago by
peter.mcerlean
• 0
0
votes
1
reply
616
views
TMM Normalization within MEDIPS ups some zero counts, is this normal?
MEDIPS
updated 5.8 years ago by
Lukas Chavez
▴ 570 • written 5.8 years ago by
jenniferlneary
• 0
1
vote
1
reply
839
views
MeDIPS and use of the 'bwa' parameter
R
medip-seq
medips
bwa
updated 5.8 years ago by
Lukas Chavez
▴ 570 • written 5.8 years ago by
stb
• 0
1
vote
6
replies
732
views
Alternative methylation contexts with MEDIPS?
MEDIPS
updated 5.8 years ago by
Matthias Lienhard
▴ 220 • written 5.8 years ago by
Chris Fields
▴ 90
0
votes
6
replies
932
views
MEDIPS - input
MEDIPS
input
6.0 years ago • updated 5.9 years ago
GFM
▴ 20
0
votes
1
reply
833
views
Questions for MEDIPS getPairedGRange function in MEDIPS.readRegionsFile.R
medips
bam file
6.0 years ago
fkuo
▴ 10
0
votes
6
replies
1.3k
views
MEDIPS: Number of windows tested in Paired-end data set
medips
r
6.1 years ago
peter.mcerlean
• 0
0
votes
5
replies
1000
views
MEDIPS genome Vs createROIset significance issue
medips
r
6.3 years ago
peter.mcerlean
• 0
0
votes
1
reply
1.2k
views
Error in MEDIPS.calibrationCurve looking for different methylation profiles
medips
R
updated 6.3 years ago by
Lukas Chavez
▴ 570 • written 6.3 years ago by
pertille
• 0
0
votes
1
reply
862
views
How to do FDR p.adj manually on "mr.edgeR object" from MEDIPS package?
R
Medips
edgeR
updated 6.3 years ago by
Lukas Chavez
▴ 570 • written 6.3 years ago by
pertille
• 0
2
votes
1
reply
794
views
How createSet from reduced "paire-ed" sequencing on MeDIPS?
medips
R
input files
updated 6.3 years ago by
Lukas Chavez
▴ 570 • written 6.3 years ago by
pertille
• 0
0
votes
1
reply
795
views
MEDIPS stable version problem
MEDIPS
updated 6.4 years ago by
Lukas Chavez
▴ 570 • written 6.4 years ago by
chengyuanzhi1986
• 0
2
votes
2
replies
1.1k
views
Normalizing Depth Coverage between samples MEDIPS
normalization
medips
depth
edgeR
"R"
updated 6.5 years ago by
Aaron Lun
★ 27k • written 6.5 years ago by
pertille
• 0
2
votes
13
replies
1.6k
views
Error with MEDIPS.createSet in queryHits
medips
createset
6.6 years ago • updated 6.5 years ago
Vanilla
• 0
0
votes
2
replies
909
views
New to R: How to use your own data for Bioconductor Packages
MEDIPS
rsamtools
updated 6.7 years ago by
Dan Tenenbaum
★ 8.2k • written 6.7 years ago by
hseepany
• 0
0
votes
1
reply
681
views
MEDIPS test data lack of 4 files
medips
updated 6.8 years ago by
Lukas Chavez
▴ 570 • written 6.9 years ago by
yanzhangusa
• 0
1
vote
2
replies
1.6k
views
MEDIPS vs MACS: why does MEDIPS generate more conservative p-values
p-value
medips
MACS
updated 7.0 years ago by
Lukas Chavez
▴ 570 • written 7.0 years ago by
tptacek3050
• 0
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