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Chip-seq
•
reset
3
votes
4
replies
2.3k
views
RiP RLE normalisation using spike-in peaks in DiffBind for ChIP-seq
DiffBind
SpikeIn
Normalization
ChIP-seq
csaw
2.0 years ago • updated 23 months ago
spg
• 0
0
votes
2
replies
1.7k
views
HOMER error: Where is the file?
HOMER
chip-seq
updated 2.1 years ago by
ATpoint
★ 4.6k • written 2.1 years ago by
兆豪
• 0
1
vote
2
replies
1.2k
views
Could it be possible to get an older version of ChIPQC?
ChIPQC
ChIP-seq
DiffBind
Rory_Stark
2.4 years ago
etiennedanis
• 0
0
votes
6
replies
2.1k
views
performing the differential binding in ChIP-seq
ChIP-seq
updated 20 months ago by
archibaldmarston
• 0 • written 2.6 years ago by
Bogdan
▴ 670
0
votes
1
reply
1.0k
views
meta-gene profiles
ChIP-seq
updated 2.8 years ago by
Guillaume Devailly
▴ 60 • written 2.8 years ago by
Bogdan
▴ 670
1
vote
1
reply
1.2k
views
Error in dba.count and dba.analyze
DiffBind
chip-seq
differentially-binding-site
updated 4.2 years ago by
Rory Stark
★ 5.2k • written 4.2 years ago by
Mar Mar
▴ 20
0
votes
2
replies
1.4k
views
ChIP-seq MA plot possibly skewed - how to normalise?
DiffBind
MA plot
normalization
ChIP-seq
updated 4.4 years ago by
Rory Stark
★ 5.2k • written 4.4 years ago by
hasse.bossenbroek
• 0
2
votes
7
replies
1.6k
views
Deferentially binding site is the same for all the samples
chip-seq
diffBind
sequence_analysis
updated 4.4 years ago by
Rory Stark
★ 5.2k • written 4.4 years ago by
Mar Mar
▴ 20
0
votes
1
reply
665
views
Which internal tool does DiffBind uses to count BAM reads to calculate sizeFactor?
DiffBind
ChIP-seq
updated 4.5 years ago by
Rory Stark
★ 5.2k • written 4.6 years ago by
bioinfouser2
▴ 10
0
votes
1
reply
1.6k
views
use diffbind with normilized bedgraph files from spike ins
diffbind
chip-seq
chip
spike
spike-ins
updated 4.5 years ago by
Rory Stark
★ 5.2k • written 4.6 years ago by
Theo
▴ 10
0
votes
0
replies
874
views
ChIPQC cross-coverage plot
chipqc
chip-seq
4.7 years ago
tuteja.reetu
• 0
0
votes
0
replies
882
views
Job:
Bolzano, Italy: Post Doc Researcher in bioinformatics of cancer epigenomics
RNA-seq
ChIP-seq
Job
4.9 years ago
Johannes Rainer
★ 2.1k
2
votes
1
reply
1.2k
views
Using Input Samples in ChIP-seq Differential Analysis (csaw/edgeR)
csaw
chip-seq
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
ATpoint
★ 4.6k
1
vote
4
replies
1.6k
views
transcriptR ChIP-seq RNA-seq bam Error in mergeNamedAtomicVectors
TranscriptR
RNA-seq
ChIP-seq
updated 5.1 years ago by
James W. MacDonald
67k • written 5.1 years ago by
jason.williams
▴ 10
1
vote
4
replies
1.2k
views
in diffbind dba.peakset what is the meaning of minOverlap?
diffbind
chip-seq
dba.peakset
updated 5.2 years ago by
Rory Stark
★ 5.2k • written 5.2 years ago by
Theo
▴ 10
1
vote
1
reply
1.0k
views
Diffbind with age as blocking factor
diffbind
chip-seq
updated 5.2 years ago by
Rory Stark
★ 5.2k • written 5.2 years ago by
melnuesch
▴ 10
0
votes
0
replies
1.6k
views
Job:
Senior/Junior Bioinformatician - University of Massachusetts Medical School
single cell sequencing
RNA-Seq
ChIP-Seq
ATAC-Seq
Job
5.5 years ago • updated 5.3 years ago
Julie Zhu
★ 4.3k
2
votes
2
replies
1.6k
views
ChIPQC gives Bam file has 297 contigs Error: subscript contains out-of-bounds indices
ChIP-seq
ChIPQC
QC
updated 5.4 years ago by
zhenfeng.liu1
▴ 20 • written 5.8 years ago by
star
▴ 10
0
votes
2
replies
3.5k
views
Reading peaks from MACS2 with DiffBind
chip-seq
peak calling
diffbind
updated 4 months ago by
Marianna
▴ 20 • written 5.6 years ago by
aviv.de-morgan
• 0
0
votes
0
replies
1.0k
views
Recommendation for visualizing ChIP-qPCR data?
R
chip-seq
histone chip-seq
ggbio
6.0 years ago
Ramiro Magno
▴ 100
2
votes
2
replies
1.4k
views
Using microarray re-annotation to combine array and Chip-Seq data
re-annotation
affymetrix microarrays
chip-seq
affymetrix mouse gene arrays
6.1 years ago
2323982403
▴ 60
0
votes
3
replies
1.0k
views
normalization of ChIP-seq data
normalization
chip-seq
6.1 years ago
Bogdan
▴ 670
0
votes
4
replies
1.8k
views
csaw spike-in normalization
ChIP-seq
csaw
updated 6.1 years ago by
Aaron Lun
★ 28k • written 6.1 years ago by
Nicolas Servant
▴ 260
0
votes
0
replies
1.1k
views
How to properly use and understand chip-seq analysis with DiffBind ?
diffbind
chip-seq
R
6.2 years ago
pierre.marin
• 0
0
votes
2
replies
1.3k
views
csaw normalization and library size
chip-seq
normalization
updated 6.4 years ago by
Aaron Lun
★ 28k • written 6.4 years ago by
Nicolas Servant
▴ 260
0
votes
7
replies
2.6k
views
Compute average score across multiple bed files
chip-seq
granges
R
bed files
updated 6.4 years ago by
spotifywebplayer
• 0 • written 6.4 years ago by
jinseok
• 0
3
votes
6
replies
1.9k
views
ChIP peak annotation: how to get all genes that overlap each peak?
ChIP-seq
chippeakanno
chipseeker
6.4 years ago
94133
• 0
0
votes
5
replies
1.6k
views
CSAW Spike In Normalization: Error in .local(object, ...) : library sizes of 'se.out' and 'object' are not identical
csaw
software error
R
chip-seq
bioconductor
updated 6.6 years ago by
Aaron Lun
★ 28k • written 6.6 years ago by
94133
• 0
1
vote
1
reply
2.6k
views
Importing Chip-Seq Peak MACS2 output (.xls) files into DBA object with Diffbind?
diffbind
macs2
chip-seq
7.0 years ago
chunhong.liu07
▴ 10
0
votes
0
replies
1.3k
views
ChIPQC: Error in names(res) <- nms
ChIPQC
chip-seq
7.1 years ago
nbkingsley
• 0
1
vote
5
replies
2.8k
views
Problem reading Bed file using dba.count in DiffBind
DiffBind
dba.count
Chip-Seq
Differential analysis
updated 3.7 years ago by
Goku
• 0 • written 7.3 years ago by
urjaswita
▴ 40
0
votes
2
replies
1.4k
views
Differential ChIP-seq with csaw: How to normalise counts on repetitive regions (telomers)?
csaw
histone chip-seq
chip-seq
updated 7.2 years ago by
Aaron Lun
★ 28k • written 7.3 years ago by
gil.hornung
• 0
1
vote
2
replies
1.8k
views
Errors with makeTxDbFromBiomart
chip-seq
updated 7.3 years ago by
Hervé Pagès
16k • written 7.3 years ago by
gnani.science
• 0
0
votes
1
reply
1.7k
views
Soggi regionPlot function gave error when import bigwig file with "percentOfRegion" mode
soGGi
chip-seq
region
updated 7.3 years ago by
Thomas Carroll
▴ 420 • written 7.4 years ago by
835102330
• 0
3
votes
11
replies
2.6k
views
Exporting normalized counts over final DB windows from csaw
csaw
edger
chip-seq
updated 7.4 years ago by
Ryan C. Thompson
★ 7.9k • written 7.4 years ago by
jms1223
▴ 10
2
votes
2
replies
1.6k
views
How to use Diffbind as complete beginner?
diffbind
chip-seq
updated 7.4 years ago by
Gord Brown
▴ 670 • written 7.4 years ago by
AA
▴ 10
0
votes
1
reply
1.7k
views
Chip-seq peak annotation [Chipseeker]
chipseeker
chip-seq
annotation
Guangchuang
updated 7.5 years ago by
Guangchuang Yu
★ 1.2k • written 7.5 years ago by
anupriyaverma1408
• 0
0
votes
0
replies
954
views
Meta-Analysis chip-seq data
chip-seq
meta-analysis
7.5 years ago
rezapanahi222
• 0
3
votes
2
replies
1.1k
views
statistical tests to show the specificity of a phenomenon (eg increase in H3K27me3 mark)
chip-seq
updated 7.8 years ago by
Wolfgang Huber
★ 13k • written 7.8 years ago by
Bogdan
▴ 670
0
votes
2
replies
1.8k
views
Visualizing Normalization in DiffBind using MA: Differences between DESEQ2 / EdgeR & full v. effective library size
diffbind
edger
deseq2
chip-seq
updated 7.9 years ago by
Rory Stark
★ 5.2k • written 7.9 years ago by
siklenkak
• 0
0
votes
3
replies
2.2k
views
Clarification on Normalization Approach in DiffBind's db.analyze()
diffbind
chip-seq
normalization
deseq2
tmm
updated 7.9 years ago by
Rory Stark
★ 5.2k • written 7.9 years ago by
siklenkak
• 0
3
votes
4
replies
2.2k
views
Interpretation of cross correlation plot to determine fragment length
csaw
chip-seq
histone
updated 7.9 years ago by
Aaron Lun
★ 28k • written 7.9 years ago by
siklenkak
• 0
4
votes
2
replies
2.6k
views
Removing GC content bias and trended bias from ChIP-seq data
csaw
chip-seq
normalization
edger
cqn
updated 8.2 years ago by
Aaron Lun
★ 28k • written 8.2 years ago by
s1437643
▴ 20
0
votes
1
reply
1.2k
views
DiffBind: Different results with different chromosome names
diffbind
chip-seq
updated 8.3 years ago by
Rory Stark
★ 5.2k • written 8.3 years ago by
D.Hemerich
• 0
0
votes
3
replies
1.6k
views
Chip-seq analysis with input
chip-seq
differential binding analysis
updated 8.4 years ago by
Aaron Lun
★ 28k • written 8.4 years ago by
damian.kao
• 0
0
votes
3
replies
4.4k
views
DiffBind Analysis with more than 2 samples?
diffbind
chip-seq
updated 8.4 years ago by
Rory Stark
★ 5.2k • written 8.4 years ago by
sarah.blackstone7734
• 0
0
votes
4
replies
2.4k
views
Subtracting INPUT reads from ChIP read counts.
diffbind
ChIP-seq
updated 10 months ago by
Rory Stark
★ 5.2k • written 8.5 years ago by
xie186
• 0
0
votes
6
replies
2.0k
views
Normalization - DESeq2 for Differential Binding using ChIP-seq data
deseq2
chip-seq
Differential binding
8.5 years ago
p2016k
• 0
1
vote
18
replies
3.7k
views
Normalization of chip-seq data in manually specified regions using CSAW
chip-seq
TSS
TMM
csaw
updated 8.6 years ago by
Aaron Lun
★ 28k • written 8.6 years ago by
saadmurtazakhan
▴ 10
0
votes
0
replies
1.1k
views
Job:
Post-doctoral position in algorithms for cancer data analysis
algorithms
ChIP-seq
cancer
Job
8.6 years ago
valentina.boeva
• 0
50 results • Page
1 of 1
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by
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16k
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