Showing : dba.count • reset
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DiffBind dba.count() crash/can't finish problems
dba.count DiffBind ATACSeq
updated 2.4 years ago by 68k • written 2.4 years ago by • 0
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1.1k
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DiffBind3: all samples have 0 counts for all genes. check the counting script
dba.count DiffBind3
4.0 years ago yang • 0
1
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6
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2.3k
views
DiffBind dba.count Error in if (sum(tokeep) < length(tokeep))
DiffBind dba.count
updated 4.0 years ago by ★ 5.3k • written 4.1 years ago by • 0
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3
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1.9k
views
issue with DiffBind dba.count
bam bai DiffBind dba.count Diffbind
updated 4.5 years ago by ★ 5.3k • written 4.5 years ago by ▴ 10
0
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6
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3.8k
views
DiffBind: Error in heights * sapply(called, function(x) x)
diffbind dba.count summits
updated 5.1 years ago by ★ 5.3k • written 8.2 years ago by • 0
0
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1
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1.0k
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diffbind counts as same values
diffbind dba.count dba.report
updated 6.4 years ago by ★ 5.3k • written 6.4 years ago by • 0
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4
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3.0k
views
How to produce the fraction of reads in peaks (FRiP) using DiffBind
DiffBind FRiP ATAC-Seq dba.show dba.count
updated 6.9 years ago by ★ 5.3k • written 6.9 years ago by ▴ 20
0
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1
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2.6k
views
Handing duplicates in DiffBind
diffbind dba.count bRemoveDuplicates bUseSummarizeOverlaps
updated 6.9 years ago by ★ 5.3k • written 6.9 years ago by • 0
1
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1
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2.0k
views
how to retrieve binding affinity matrix in diffbind
diffbind dba.count
updated 7.0 years ago by ★ 5.3k • written 7.0 years ago by • 0
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1
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1.0k
views
dba.count generates less ranges than input peakset
diffbind dba.count dba.peakset
updated 7.8 years ago by ★ 5.3k • written 7.9 years ago by • 0
3
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7
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2.8k
views
dba.count with pre-defined regions
dba.count dba chipseq diffbind
updated 8.2 years ago by ★ 5.3k • written 8.2 years ago by ▴ 10
0
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6
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2.7k
views
Warnings when update DiffBind and running errors
diffbind atac-seq dba.count
updated 8.2 years ago by ★ 5.3k • written 8.2 years ago by • 0
3
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9
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3.8k
views
Error When using dba.count() in DiffBind
dba.count atac-seq diffbind
updated 8.3 years ago by ▴ 670 • written 8.3 years ago by • 0
0
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1
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1.5k
views
Error with dba.count function code
diffbind dba.count atac-seq
updated 8.3 years ago by ▴ 670 • written 8.3 years ago by • 0
0
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3
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2.1k
views
Error with dba.count function
diffbind dba.count
updated 8.3 years ago by ▴ 670 • written 8.3 years ago by • 0
1
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5
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3.2k
views
Problem reading Bed file using dba.count in DiffBind
DiffBind dba.count Chip-Seq Differential analysis
updated 4.9 years ago by • 0 • written 8.4 years ago by ▴ 40
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2
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1.6k
views
Diffbind results - non uniform width
diffbind dba.count
updated 8.8 years ago by ★ 5.3k • written 8.8 years ago by ▴ 70
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1
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2.2k
views
DiffBind - Difference in counting methodology when summits option in dba.count is on?
diffbind dba.count summits
updated 9.1 years ago by ★ 5.3k • written 9.2 years ago by • 0
1
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2
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1.6k
views
The descriptions of score methods in DiffBind
DiffBind dba.count score manual PDF
updated 9.2 years ago by ★ 5.3k • written 9.2 years ago by ▴ 20
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3
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1.8k
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DiffBind dba.count() seqfault
diffbind dba.count
9.7 years ago em540 • 0
1
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3
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3.3k
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[DiffBind] Memory issues with dba.count()
diffbind bigmemory matrix dba.count
updated 10.5 years ago by ★ 5.3k • written 10.5 years ago by ▴ 680
21 results • Page 1 of 1
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Comment: Which preprocessing steps are needed before running limpa? by miro165sabo • 0
Hi @gordonsmyth, thank you a lot for very fast and valuable response. I edited the question to provide more details.
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ? by Gordon Smyth 53k
I tend to use dpcCN(), because it more robust than dpc() to experiments with lots of samples and big differences between samples. You coul…
Answer: Which preprocessing steps are needed before running limpa? by Gordon Smyth 53k
Please see the example limpa analyses given at <http://github.com/smythlab/limpa>, especially the kidney cancer case study. limpa does not…
Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name by Korneel • 0
Thanks for the quick reply! If I understand correctly, I think if I keep track of the full lineage, I shouldn't have any risk of collapsin…
Comment: Pathway abundance data from Curatedmetagenomics by yesquokkan • 0
Hello, I was also wondering about the same issue. Did you figure it out?
Votes
Answer: Which preprocessing steps are needed before running limpa?
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?
Answer: Which preprocessing steps are needed before running limpa?
Answer: Which preprocessing steps are needed before running limpa?
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?
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