Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
Medips
•
reset
0
votes
0
replies
321
views
medips-output
ngsReports
MEDIPS
9 months ago
Researcher
▴ 10
9
votes
18
replies
3.7k
views
Generation of QSEA TCGA 450K Human Methylation Calibration Dataset
illimina 450k methylation
qsea
MEDIPS
TCGA
updated 11 months ago by
Matthias Lienhard
▴ 280 • written 7.7 years ago by
justinburgener
▴ 20
0
votes
1
reply
441
views
MEDIPS - covariate
MEDIPS
updated 14 months ago by
James W. MacDonald
67k • written 14 months ago by
James
• 0
0
votes
0
replies
446
views
CpG coverage with MEDIPS
MEDIPS
CpG
15 months ago
greta
• 0
0
votes
0
replies
713
views
How to use MeDIPS with BEDPE format input?
R
medip-seq
MEDIPS
22 months ago
Luomeng
• 0
1
vote
4
replies
1.5k
views
QSEA: choose appropriate reference for TMM normalisation with qsea::addLibraryFactors / qsea::estimateLibraryFactors
TMM
edgeR
qsea
MEDIPS
updated 2.3 years ago by
Simon Pearce
• 0 • written 2.3 years ago by
a.riediger
▴ 20
0
votes
2
replies
1.1k
views
MBD-seq non model species
MethylSeq
ramwas
MEDIPS
qsea
updated 2.4 years ago by
Simon Pearce
• 0 • written 2.4 years ago by
Marianna
▴ 20
0
votes
2
replies
1.2k
views
MEDIPS - error using MEDIPS.CpGenrich
MEDIPS
2.9 years ago
Ian
• 0
0
votes
0
replies
907
views
MEDIPS.meth output
MEDIPS
edgeR
l
3.3 years ago
Aranzazu
• 0
0
votes
0
replies
789
views
MEDIPS - export wig with normalized counts
MEDIPS
3.8 years ago
lshepard
▴ 40
2
votes
4
replies
1.1k
views
MEDIPS results differ with sample ordering
MEDIPS
edgeR
updated 4.6 years ago by
Lukas Chavez
▴ 570 • written 4.9 years ago by
keegan
▴ 60
2
votes
1
reply
969
views
MEDIPS - Error in MEDIPS.CpGenrich
MEDIPS
updated 4.8 years ago by
Lukas Chavez
▴ 570 • written 4.8 years ago by
gaurav4thareja
▴ 20
1
vote
1
reply
878
views
MEDIPS.CpGenrich now that RangedData is deprecated
MEDIPS
RangedData
GenomicRanges
updated 4.8 years ago by
Lukas Chavez
▴ 570 • written 4.8 years ago by
emham
• 0
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
4
votes
5
replies
1.6k
views
Extracting normalized counts in MEDIPS
MEDIPS
MeDIP-seq
updated 3.3 years ago by
Lukas
▴ 20 • written 5.1 years ago by
lshepard
▴ 40
0
votes
0
replies
793
views
Why does MEDIPS only import read 1 when paired=TRUE for MEDIPS.createSet()function ?
#MEDIPS
MEDIPS
5.2 years ago
agm
• 0
1
vote
1
reply
1.0k
views
sva correction for MEDIPS
MEDIPS
svaseq
sva
updated 5.9 years ago by
Lukas Chavez
▴ 570 • written 5.9 years ago by
tofukaj
• 0
0
votes
0
replies
1.1k
views
error importing bam file for MEDIPS analysis
MEDIPS
bamfile
updated 6.0 years ago by
Bioconductor Community
0 • written 6.1 years ago by
oussama.badad
• 0
1
vote
2
replies
1.2k
views
Comparing more than 2 experimental groups with MEDIPS?
medips
medip-seq
dna methylation
dmr analysis
updated 6.1 years ago by
Lukas Chavez
▴ 570 • written 6.1 years ago by
mtefit
• 0
0
votes
2
replies
1.3k
views
create.set on MEDIPS
medips
createset
updated 6.1 years ago by
Lukas Chavez
▴ 570 • written 6.1 years ago by
oussama.badad
• 0
0
votes
4
replies
1.5k
views
CpG density in MEDIPS
CpG
MEDIPS
6.2 years ago
saripalligautam86
▴ 10
0
votes
0
replies
1.2k
views
Indexing large chromosomes (like wheat) bam files in Rsamtools
Rsamtools
QSEA
MEDIPS
6.2 years ago
saripalligautam86
▴ 10
0
votes
3
replies
1.3k
views
Coupling set error in MEDIPS
medips
coupling set error
cpg density
6.2 years ago
saripalligautam86
▴ 10
0
votes
0
replies
816
views
CouplingSet error in MeDIPS
MEDIPS
coupling set error
6.2 years ago
saripalligautam86
▴ 10
0
votes
3
replies
1.5k
views
MEDIPS - Annotation output explanation
MEDIPS
Output
6.7 years ago
vjain
• 0
1
vote
6
replies
2.2k
views
MEDIP: Problem with MEDIPS.createSet
medips
bsgenome
medip-seq
updated 6.8 years ago by
Lukas Chavez
▴ 570 • written 6.8 years ago by
vjain
• 0
3
votes
1
reply
1.4k
views
RMS question in MEDIPS
RMS
RPKM
MEDIPS
updated 6.8 years ago by
Lukas Chavez
▴ 570 • written 6.8 years ago by
enrique.yeh
▴ 10
0
votes
6
replies
2.2k
views
MeDIPS: warning when using "ttest" settings in MEDIPS.meth
R
medips
medip-seq
8.4 years ago • updated 7.5 years ago
stb
• 0
3
votes
5
replies
1.9k
views
CNV parameter not working - MEDIPS
medips
medip-seq
error
lukas
updated 7.6 years ago by
Matthias Lienhard
▴ 280 • written 7.6 years ago by
anupriyaverma1408
• 0
1
vote
1
reply
1.4k
views
Window size for MEDIPS
medips
medip-seq
peak finding
luckas
updated 7.6 years ago by
Lukas Chavez
▴ 570 • written 7.6 years ago by
anupriyaverma1408
• 0
0
votes
2
replies
1.9k
views
MeQA and MEDIPS
bioconductor
meqa
medips
updated 7.6 years ago by
palchamy
• 0 • written 8.6 years ago by
manish.kumar
• 0
0
votes
1
reply
1.3k
views
How does the function MEDIPS.CpGenrich work?
medips
updated 7.7 years ago by
Lukas Chavez
▴ 570 • written 7.7 years ago by
stb
• 0
0
votes
1
reply
1.6k
views
Error raised during execution of MEDIPS package
medips
updated 7.8 years ago by
Lukas Chavez
▴ 570 • written 7.8 years ago by
pinky_pinkpinky
• 0
0
votes
1
reply
1.2k
views
MEDIPS: case study with different replicate numbers of control and case
MEDIPS
updated 8.0 years ago by
Lukas Chavez
▴ 570 • written 8.0 years ago by
fmhsu0114
• 0
0
votes
1
reply
1.3k
views
Insertion size when using 'paired' in MEDIPS.createSet()
medips
R
medip-seq
pair-end reads
updated 8.1 years ago by
Lukas Chavez
▴ 570 • written 8.1 years ago by
stb
• 0
0
votes
1
reply
1.2k
views
How to make my custom genome available in MEDIPS?
MEDIPS
8.1 years ago
Vijay Lakhujani
• 0
0
votes
1
reply
1.5k
views
similar problem installing MEDIPS on Ubuntu 14.04
installation
medips
8.2 years ago
avilella
▴ 10
0
votes
1
reply
1.4k
views
MEDIPS - do reads without CG's get filtered out prior to analysis?
medips
updated 8.2 years ago by
Lukas Chavez
▴ 570 • written 8.2 years ago by
chu_shirley
• 0
0
votes
1
reply
1.2k
views
How does the 'paired' argument works in MeDIPS 1.23.2
medips
medip-seq
R
pair-end reads
updated 8.3 years ago by
Lukas Chavez
▴ 570 • written 8.3 years ago by
stb
• 0
0
votes
1
reply
1.3k
views
Gene Symbol Annotation
medips
updated 8.4 years ago by
Lukas Chavez
▴ 570 • written 8.4 years ago by
peter.mcerlean
• 0
0
votes
1
reply
1.3k
views
TMM Normalization within MEDIPS ups some zero counts, is this normal?
MEDIPS
updated 8.4 years ago by
Lukas Chavez
▴ 570 • written 8.4 years ago by
jenniferlneary
• 0
1
vote
1
reply
1.7k
views
MeDIPS and use of the 'bwa' parameter
R
medip-seq
medips
bwa
updated 8.4 years ago by
Lukas Chavez
▴ 570 • written 8.4 years ago by
stb
• 0
1
vote
6
replies
1.6k
views
Alternative methylation contexts with MEDIPS?
MEDIPS
updated 8.4 years ago by
Matthias Lienhard
▴ 280 • written 8.4 years ago by
Chris Fields
▴ 90
0
votes
6
replies
1.9k
views
MEDIPS - input
MEDIPS
input
8.5 years ago
GFM
▴ 20
0
votes
1
reply
1.4k
views
Questions for MEDIPS getPairedGRange function in MEDIPS.readRegionsFile.R
medips
bam file
8.6 years ago
fkuo
▴ 10
0
votes
6
replies
2.2k
views
MEDIPS: Number of windows tested in Paired-end data set
medips
r
8.7 years ago
peter.mcerlean
• 0
0
votes
5
replies
1.9k
views
MEDIPS genome Vs createROIset significance issue
medips
r
8.9 years ago • updated 8.8 years ago
peter.mcerlean
• 0
0
votes
1
reply
1.9k
views
Error in MEDIPS.calibrationCurve looking for different methylation profiles
medips
R
updated 8.9 years ago by
Lukas Chavez
▴ 570 • written 8.9 years ago by
pertille
• 0
0
votes
1
reply
1.4k
views
How to do FDR p.adj manually on "mr.edgeR object" from MEDIPS package?
R
Medips
edgeR
updated 8.9 years ago by
Lukas Chavez
▴ 570 • written 8.9 years ago by
pertille
• 0
2
votes
1
reply
1.4k
views
How createSet from reduced "paire-ed" sequencing on MeDIPS?
medips
R
input files
updated 8.9 years ago by
Lukas Chavez
▴ 570 • written 8.9 years ago by
pertille
• 0
50 results • Page
1 of 1
Recent ...
Replies
Comment: Perform gene set enrichment analysis using fgsea on two conditions that don't ha
by
freemanmclaughlin9969289
• 0
Tools such as Pathway Analysis with Deweighting of Overlapping Genes ([block blast][1]) or Gene Set Enrichment Analysis for Single Cell RNA…
Comment: How to get around the warning message: mzR has been built against a different Rc
by
Nan
• 0
Hello, I was wondering if you were able to resolve this issue? I've recently encountered a similar problem and would like to ask for your a…
Answer: EuroBioC2023 abstract submission closing soon!
by
excess.gecko.shso
• 0
Don't miss out! EuroBioC2023 abstract submissions are nearing the deadline. Sharpen your scientific [Wordle Game][1] skills and submit your…
Answer: EuroBioC2024 abstract submission is open!
by
excess.gecko.shso
• 0
EuroBioC2024 abstract submissions are now open! Join the Oxford conference from Sep 4-6. Submit your abstract by April 26 for short talks, …
Comment: Cross-validation with multiple control subgroups in limma
by
Ali Barry
▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Votes
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
Awards
• All
Popular Question
to
bpshtiwan
▴ 10
Popular Question
to
Ali Barry
▴ 40
Popular Question
to
gabriel.hoffman
▴ 170
Popular Question
to
Jenny Drnevich
★ 2.0k
Popular Question
to
martin.grigorov
▴ 10
Locations
• All
United Kingdom,
37 minutes ago
UPF, Barcelona, Spain,
1 hour ago
China,
1 hour ago
EMBL Heidelberg,
2 hours ago
China,
2 hours ago
Traffic: 443 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6