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macs2
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ChIP-Seq Analysis: Comparing Unannotated Peaks with DESeq2
DESeq2
MACS2
17 months ago
vanbelj
▴ 30
0
votes
1
reply
1.8k
views
DiffBind Normalisation between Narrow/Broad Peaks from different peak callers
ChIPSeq
SICER2
DiffBind
MACS2
offtopic
updated 2.9 years ago by
James W. MacDonald
65k • written 2.9 years ago by
Yuan Tian
▴ 280
0
votes
2
replies
1.3k
views
DiffBind consensus peak set
DiffBind
MACS2
updated 3.7 years ago by
Rory Stark
★ 5.2k • written 3.7 years ago by
ep15587
• 0
0
votes
2
replies
1.6k
views
DiffBind peaks input file format
DiffBind
macs2
updated 5.1 years ago by
Rory Stark
★ 5.2k • written 5.2 years ago by
Anna
• 0
0
votes
2
replies
937
views
Binding matrix creation DiffBind after MACS2 peak call
diffbind
macs2
updated 6.0 years ago by
Rory Stark
★ 5.2k • written 6.1 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
6.4 years ago
chunhong.liu07
▴ 10
2
votes
3
replies
9.2k
views
DiffBind for ATAC-seq
atac-seq
diffbind
macs2
macs
peak finding
updated 7.1 years ago by
BioinfGuru
▴ 30 • written 7.7 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 8.4 years ago by
tony
▴ 10
8 results • Page
1 of 1
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Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge
by
shuwangxinze1996
• 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough? Thank …
Comment: DESeq2 output used for PCA plot on R studio
by
Kevin Blighe
★ 3.9k
This comment helps.
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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