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MACS2
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ChIP-Seq Analysis: Comparing Unannotated Peaks with DESeq2
DESeq2
MACS2
16 months ago
vanbelj
▴ 20
0
votes
1
reply
1.8k
views
DiffBind Normalisation between Narrow/Broad Peaks from different peak callers
ChIPSeq
SICER2
DiffBind
MACS2
offtopic
updated 2.8 years ago by
James W. MacDonald
65k • written 2.8 years ago by
Yuan Tian
▴ 270
0
votes
2
replies
1.3k
views
DiffBind consensus peak set
DiffBind
MACS2
updated 3.6 years ago by
Rory Stark
★ 5.1k • written 3.6 years ago by
ep15587
• 0
0
votes
2
replies
1.5k
views
DiffBind peaks input file format
DiffBind
macs2
updated 5.0 years ago by
Rory Stark
★ 5.1k • written 5.2 years ago by
Anna
• 0
0
votes
2
replies
909
views
Binding matrix creation DiffBind after MACS2 peak call
diffbind
macs2
updated 6.0 years ago by
Rory Stark
★ 5.1k • written 6.0 years ago by
Lauma R
▴ 10
1
vote
1
reply
2.2k
views
Importing Chip-Seq Peak MACS2 output (.xls) files into DBA object with Diffbind?
diffbind
macs2
chip-seq
6.3 years ago
chunhong.liu07
▴ 10
2
votes
3
replies
9.1k
views
DiffBind for ATAC-seq
atac-seq
diffbind
macs2
macs
peak finding
updated 7.0 years ago by
BioinfGuru
▴ 20 • written 7.6 years ago by
igor
▴ 40
2
votes
4
replies
4.8k
views
diffbind and macs2 output
diffbind
macs2
updated 8.3 years ago by
Gord Brown
▴ 650 • written 8.3 years ago by
tony
▴ 10
8 results • Page
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Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
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…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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