Showing : Diffbind • reset
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2.4k
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DiffBind peaks input file format
DiffBind macs2
updated 6.7 years ago by ★ 5.2k • written 6.8 years ago by • 0
0
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1
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1.6k
views
DiffBind - Counting reads - counts not found
diffbind differential analysis genetics #chip-seq
updated 6.7 years ago by ★ 5.2k • written 6.7 years ago by • 0
0
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1
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934
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Diffbind plotting options
diffbind
updated 6.7 years ago by ★ 5.2k • written 6.7 years ago by • 0
0
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1
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2.4k
views
Handing duplicates in DiffBind
diffbind dba.count bRemoveDuplicates bUseSummarizeOverlaps
updated 6.7 years ago by ★ 5.2k • written 6.7 years ago by • 0
1
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1
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1.9k
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how to retrieve binding affinity matrix in diffbind
diffbind dba.count
updated 6.7 years ago by ★ 5.2k • written 6.7 years ago by • 0
2
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2
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2.8k
views
DiffBind for ATAC-seq -- bFullLibrarySize parameter
diffbind atac
updated 6.7 years ago by ★ 5.2k • written 6.7 years ago by • 0
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0
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751
views
diffbind: use of continuous variables
diffbind deseq2
6.8 years ago janani.sundaresan • 0
2
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2
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4.8k
views
Error in estimateDispersionsFit(object, fitType = fitType, quiet = quiet) on using DBA_DESEQ2 with blocking factor.
diffbind
updated 6.8 years ago by ★ 5.2k • written 6.8 years ago by • 0
0
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0
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789
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DiffBind - Difficulties construction appropriate consensus set
Diffbind
6.9 years ago Rob Buurstede • 0
3
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7
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5.5k
views
DEseq2 for differential binding analysis ChIP seq
deseq2 diffbind csaw greylistchip chipseq
updated 6.9 years ago by 43k • written 6.9 years ago by • 0
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0
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1.1k
views
Unable to reproduce DiffBind PCA plot
diffbind news
6.9 years ago jingyaq ▴ 10
3
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5
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2.0k
views
News: sorted the results of function dba.report in DiffBind R package
diffbind News
updated 6.9 years ago by ★ 5.2k • written 6.9 years ago by • 0
0
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0
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652
views
Converting DESeq2 results to DiffBind object
deseq2 diffbind
7.0 years ago rbronste ▴ 60
2
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2
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2.7k
views
dba.count Can't count: some peaksets are not associated with a .bam file.
diffbind
updated 7.0 years ago by ★ 5.2k • written 7.0 years ago by • 0
3
votes
1
reply
998
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dba.count binding matrix coordinates
DiffBind
updated 7.0 years ago by ★ 5.2k • written 7.0 years ago by ▴ 10
0
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1
reply
1.7k
views
Use DiffBind to find differential peaks among multiple cell types
diffbind atac-seq differential analysis deseq2
updated 7.0 years ago by ★ 5.2k • written 7.0 years ago by • 0
1
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1
reply
1.1k
views
How to color different column bars independently using dba.plotHeatmap (DiffBind)?
diffbind dba.plotHeatmap
updated 7.0 years ago by ★ 5.2k • written 7.0 years ago by ▴ 20
0
votes
1
reply
974
views
adding a new consensus peakset question
diffbind
updated 7.0 years ago by ★ 5.2k • written 7.0 years ago by • 0
3
votes
2
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1.9k
views
diffbind finding not differential site
diffbind chipseq histone chip-seq differential binding analysis
updated 7.0 years ago by ★ 5.2k • written 7.0 years ago by • 0
3
votes
3
replies
1.8k
views
Differential analysis of multiple samples with different time points
diffbind R atac-seq
updated 7.1 years ago by ★ 5.2k • written 7.1 years ago by • 0
0
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0
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1.2k
views
How to properly use and understand chip-seq analysis with DiffBind ?
diffbind chip-seq R
7.1 years ago pierre.marin • 0
0
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2
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975
views
dba.report() output counts
diffbind
updated 7.1 years ago by ★ 5.2k • written 7.1 years ago by • 0
0
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1
reply
966
views
Blocking factors for differential binding analysis with DiffBind
diffbind
updated 7.1 years ago by ★ 5.2k • written 7.4 years ago by ▴ 40
2
votes
4
replies
2.0k
views
DiffBind confuses coordinates of peaks
atacseq diffbind
updated 7.1 years ago by ★ 5.2k • written 7.1 years ago by ▴ 10
1
vote
3
replies
1.3k
views
How to get peaks summit using dba.peakset
diffbind
updated 7.2 years ago by ★ 5.2k • written 7.2 years ago by ▴ 30
1
vote
7
replies
3.7k
views
ChipQC not loading files
ChipQC diffbind
updated 7.2 years ago by ▴ 420 • written 7.2 years ago by • 0
1
vote
1
reply
770
views
DESeq2 for ChIP-seq
deseq2 diffbind
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
3
replies
1.2k
views
DiffBind: dba.overlap error
DiffBind dba.overlap
7.3 years ago romicakerketta • 0
1
vote
3
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930
views
Question of DiffBind for ChIP-Seq analysis
diffbind
updated 7.3 years ago by ★ 5.2k • written 7.3 years ago by • 0
5
votes
9
replies
2.6k
views
DESeq2 baseMean from DiffBind summarizedExperiment
deseq2 diffbind basemean summarizedexperiment
7.3 years ago rbronste ▴ 60
2
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5
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1.7k
views
Differential ChIP-seq analysis
diffbind csaw
updated 7.3 years ago by ★ 5.2k • written 7.3 years ago by • 0
0
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1
reply
768
views
DiffBind different read counts depending on dba.count scores specified
DiffBind
7.4 years ago Lauma R ▴ 10
0
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2
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2.8k
views
Changing box plot font sizes for axes and labels in DiffBind
diffbind
7.4 years ago Mthabisi Moyo ▴ 40
1
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1
reply
1.0k
views
getting DiffBind full result list
deseq2 diffbind chipseq
updated 7.4 years ago by ★ 5.2k • written 7.4 years ago by • 0
0
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1
reply
1.1k
views
change x- and y-axis limit within dba.plotVolcano in DiffBind
diffbind
updated 7.4 years ago by ★ 5.2k • written 7.4 years ago by • 0
1
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1
reply
906
views
DiffBind question on adb.contrast
diffbind
updated 7.4 years ago by ★ 5.2k • written 7.4 years ago by • 0
2
votes
3
replies
3.6k
views
Counting reads in fixed width peaks with DiffBind::dba.count without re-centering?
diffbind chipseq counts peaks bedtools
updated 4.5 years ago by ★ 5.2k • written 7.5 years ago by ▴ 10
0
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1
reply
1.1k
views
Combine separate dba objects into the one
Diffbind
updated 7.5 years ago by ★ 5.2k • written 7.5 years ago by ▴ 10
0
votes
0
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1.0k
views
Differential ChIP regions across >2 conditions
diffbind chipseq
7.5 years ago Shamaine • 0
1
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2
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3.5k
views
Diffbind: How do I set up multiple contrasts, for example tissue type and timepoint?
diffbind
updated 7.5 years ago by ★ 5.2k • written 7.6 years ago by • 0
0
votes
6
replies
2.0k
views
DiffBind error with dba.count
diffbind
updated 7.5 years ago by ★ 5.2k • written 7.6 years ago by • 0
3
votes
3
replies
5.2k
views
Error "if (is.na(peaks)) { : argument is of length zero " in DiffBind
diffbind chipseq peaks dba is.na
7.6 years ago maria.kondili ▴ 10
0
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1
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964
views
dba.count generates less ranges than input peakset
diffbind dba.count dba.peakset
updated 7.6 years ago by ★ 5.2k • written 7.6 years ago by • 0
0
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2
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1.6k
views
Binding matrix creation DiffBind after MACS2 peak call
diffbind macs2
updated 7.6 years ago by ★ 5.2k • written 7.6 years ago by ▴ 10
0
votes
4
replies
2.5k
views
How to extract overlapping and unique peaks from the Venn Diagram to a csv format in DiffBind?
DiffBind plotvenn
updated 7.6 years ago by ★ 5.2k • written 7.6 years ago by ▴ 10
0
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4
replies
3.2k
views
DiffBind question: How to extract read counts?
diffbind read counts extract data
updated 7.6 years ago by ★ 5.2k • written 7.6 years ago by • 0
2
votes
4
replies
1.2k
views
Extracting origin info from DB sites
DiffBind
updated 7.7 years ago by ★ 5.2k • written 7.7 years ago by • 0
1
vote
1
reply
721
views
heatmap of all contrasted sites
DiffBind
updated 7.7 years ago by ★ 5.2k • written 7.7 years ago by • 0
0
votes
1
reply
1.4k
views
DiffBind count warning
diffbind parallel
updated 7.7 years ago by ★ 5.2k • written 7.7 years ago by • 0
0
votes
1
reply
1.3k
views
error when create dba object
diffbind
updated 7.8 years ago by ★ 5.2k • written 7.8 years ago by • 0
678 results • Page 8 of 14
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Comment: Issues with downloading biomaRt - SeqInfo and S4 Vectors by James W. MacDonald 68k
Note that `S4Vectors` contains source code, so you will also need to [install RTools first][1]. [1]: https://cran.r-project.org/bin/win…
Answer: Issues with downloading biomaRt - SeqInfo and S4 Vectors by shepherl 4.2k
Our windows binaries are currently lagging behind as we are currently do not have a windows builder. If you are on windows you can try ins…
Comment: Issues with downloading biomaRt - SeqInfo and S4 Vectors by shepherl 4.2k
Can you please provide your `sessionInfo()` after doing `library("S4Vectors")`
Comment: VariantAnnotation does escape = within header string quotes by Daniel Cameron ▴ 40
I'm just stripping the entire line as a workaround using `meta(header(vcf))$DRAGENCommandLine = NULL`. Not ideal but at least subsequent pa…
Comment: Setting up a DESeq2 Design with Paired Data by Alexander • 0
Hi Kevin, Firstly, thank you so much for not only a very prompt response, but one that is incredibly insightful and helps me learn DESeq2 …
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Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Suppress warning in RHDF5 write
Answer: Suppress warning in RHDF5 write
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