Showing : atacseq • reset
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Spike-in normalization method in ATACseq
sperm Drosophila_melanogaster ATACSeq Normalization SpikeIn
updated 18 days ago by ★ 4.5k • written 19 days ago by • 0
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0
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96
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diffbind covariates
DiffBind ATACSeq
updated 24 days ago by 42k • written 25 days ago by ▴ 220
2
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5
replies
650
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Trying to convert ATACseq annotations of non-model species into human orthologs, but not sure of what to do.
genomes ATACSeq
9 weeks ago ronin • 0
0
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0
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377
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FindOverlaps, makeVennDiagram and "others"
ATACSeq peaks ATAC ChIPpeakAnno
6 months ago Raghad • 0
0
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4
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540
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Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind DESeq2 ATACSeq
7 months ago lonn • 0
0
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0
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324
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DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind ATACSeq
7 months ago Pierre Lindenbaum ▴ 10
0
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1
reply
573
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Extracting binding matrix with raw counts from DiffBind in ATAC-seq data not working
DiffBind ATACSeq
10 months ago isaromero8888 • 0
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0
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580
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Which normalization should I do use for ATAC Seq using DiffBind
DiffBind edgeR ATACSeq DESeq2
10 months ago Jawahar • 0
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0
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436
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ATACseq- Counts around TSS plot
DiffBind ATACSeq
10 months ago inna.gur • 0
0
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7
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1.1k
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ATACseqQC shiftGAlignmentsList() problem
ATACseqQC ATACSeq
updated 8 months ago by ▴ 10 • written 11 months ago by • 0
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0
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621
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DiffBind dba.count() crash/can't finish problems
dba.count DiffBind ATACSeq
updated 13 months ago by 67k • written 13 months ago by • 0
0
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2
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1.4k
views
DiffBind dropping peaks in ATAC-seq data
DiffBind ATACSeq
updated 16 months ago by ★ 1.6k • written 16 months ago by • 0
4
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6
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1.3k
views
Positive and negative value fold value in ATAC seq using DiffBind
DiffBind ATACSeq
19 months ago Chris ▴ 20
5
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8
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1.4k
views
Help with error install csaw
ChIPSeq ATACSeq
written 20 months ago by ▴ 20
3
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5
replies
1.1k
views
How to annotate genes from results of DiffBind
ATACSeq
updated 19 months ago by 67k • written 19 months ago by ▴ 20
8
votes
13
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3.9k
views
Help with Error in DiffBind
DiffBind ATACSeq
20 months ago • updated 19 months ago Chris ▴ 20
2
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1
reply
2.8k
views
DiffBind on ATAC seq data
ATACSeq
updated 20 months ago by ★ 5.2k • written 20 months ago by ▴ 20
0
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1
reply
831
views
DiffBind- differentiate between new peaks and gain peaks
ATAC DiffBind ATACSeq
updated 21 months ago by ★ 5.2k • written 21 months ago by • 0
0
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1
reply
765
views
Error in ATACseqQC bamQC analysis
ATACSeq ATACseqQC
updated 22 months ago by ★ 1.3k • written 22 months ago by • 0
0
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0
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795
views
How we could calculate the sample size for ATAC seq and single cell RNA seq, respectively?
singlecellRNAseq ATACseq sample-size
2.0 years ago gogniu • 0
0
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2
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1.6k
views
long computing time for TSS enrichment score
ATACSeq
updated 15 months ago by • 0 • written 2.2 years ago by • 0
0
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0
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883
views
Job: Postdoc position in integrated omics at Karolinska Institute, Stockholm
ATACSeq multiOmicsViz scRNAseq JobPosting
2.3 years ago Sebastian Lewandowski • 0
0
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1
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1.7k
views
Diffbind analysis of ATAC-seq data
ATACSeq DiffBind
updated 2.4 years ago by ★ 5.2k • written 2.4 years ago by • 0
2
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3
replies
1.2k
views
DiffBind always reverts to default normalization
ATACSeq Normalization DiffBind
2.6 years ago • updated 2.5 years ago bers.anthrope ▴ 10
1
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3
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1.9k
views
regionCounts() from csaw - object 'fancy_mseq' not found
ATACSeq regionCounts csaw
updated 11 months ago by • 0 • written 2.6 years ago by • 0
0
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0
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776
views
[ATACseqQC] NA values in sigs makes heatmap not completed
ATACseqQC ATACSeq
2.7 years ago hyjforesight • 0
2
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5
replies
5.5k
views
using DESeq2 for ATAC analyses
ATACSeq DESeq2
updated 2.3 years ago by ▴ 20 • written 3.1 years ago by ▴ 20
0
votes
3
replies
1.4k
views
package for ATACseq data analysis
SequencingData ATACSeq ATACseqQC
updated 2.3 years ago by ★ 5.2k • written 3.1 years ago by ▴ 40
1
vote
3
replies
1.9k
views
Using block and design together in Diffbind 3.0?
DiffBind R ATACSeq
updated 3.3 years ago by ▴ 80 • written 3.3 years ago by • 0
5
votes
8
replies
2.6k
views
how to construct a DBA object from count matrix
ChIPSeq ATACSeq differentially_occupied DiffBind
updated 2.5 years ago by ▴ 20 • written 3.4 years ago by ▴ 30
1
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4
replies
1.9k
views
Binding matrix created by DiffBind
ATACSeq DiffBind
3.4 years ago sh.kazempour94 ▴ 10
2
votes
5
replies
4.3k
views
News: New in DiffBind 3.2: dba.plotProfile() - Peak profiles and profile heatmaps
profileplyr ATACSeq DiffBind ComplexHeatmap ChIPSeq
updated 23 months ago by • 0 • written 3.5 years ago by ★ 5.2k
0
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4
replies
1.6k
views
DiffBind
ATACSeq DiFFBind
3.6 years ago • updated 3.5 years ago Riba Michela ▴ 90
1
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5
replies
2.1k
views
How to add chr to an dba object before differential analysis to enable removing blacklisted regions
DiffBind ATACSeq
updated 3.7 years ago by 67k • written 3.7 years ago by • 0
2
votes
4
replies
1.9k
views
DiffBind analysis for ATAC-Seq error Error processing one or more read files
ATACSeq DiffBind
updated 3.7 years ago by ★ 5.2k • written 3.7 years ago by • 0
1
vote
1
reply
1.8k
views
News: Extensive updates in DiffBind 3.0
Normalization ATACSeq ChIPSeq DiffBind chipseq
written 4.1 years ago by ★ 5.2k
1
vote
10
replies
2.9k
views
DiffBind for ATACseq without replicates
DiffBind ATACseq replicate
updated 4.0 years ago by ★ 5.2k • written 4.1 years ago by ▴ 70
0
votes
4
replies
2.3k
views
ATACseqQC R package for QC scores (TSS, FRIP, NFR, IDR)
ATACseqQC atacseq R
updated 4.2 years ago by ★ 1.3k • written 4.3 years ago by • 0
1
vote
2
replies
11k
views
Interpreting TSS Enrichment Score Summary
atacseq atacseqqc tss enrichment
updated 4.3 years ago by ★ 1.3k • written 4.3 years ago by • 0
0
votes
7
replies
2.1k
views
ATACseqQC shiftGAlignmentsList leads to (all(elementNROWS)>3) is not TRUE error
ATACseqQC ATAC ATACseq software error Tutorial
updated 5.4 years ago by ★ 13k • written 5.4 years ago by • 0
0
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2
replies
1.4k
views
calculating TSS enrichment from ATACseq data
GenomicRanges Views ATACseq TSS
5.5 years ago tangming2005 ▴ 200
2
votes
1
reply
1.6k
views
Using DiffBind with only a counts table?
diffbind ATACseq ATAC counts differential analysis
updated 5.7 years ago by ★ 5.2k • written 5.7 years ago by ▴ 10
1
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2
replies
2.2k
views
DeSEQ2- What is the difference between Gene Clustering and using LRT for Time Series experiment WITHOUT treatments
deseq2 Time Series Gene Clustering LRT ATACseq
updated 5.7 years ago by 42k • written 5.7 years ago by • 0
2
votes
4
replies
1.7k
views
DiffBind confuses coordinates of peaks
atacseq diffbind
updated 6.1 years ago by ★ 5.2k • written 6.2 years ago by ▴ 10
0
votes
2
replies
1.4k
views
mogsa on RNA-seq and ATAC-seq data
mogsa atacseq
updated 6.4 years ago by • 0 • written 6.4 years ago by ▴ 30
45 results • Page 1 of 1
Recent ...
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Answer: HilBertVis install error by James W. MacDonald 67k
It appears you have compiler flags set that preclude you from compiling (-Werror=format-security). If I install `HilbertVis` on my work box…
Comment: Identical samples after deseq2 batch effect removal by maripane • 0
Thanks Michael for quick reply. Actually, I also questioned this but later i saw this issue happens within another cluster and different c…
Answer: Identical samples after deseq2 batch effect removal by Michael Love 42k
> 2 of my treatment samples have identical normalised gene expression for all genes. This sounds like a quantification / sample labeling…
Answer: Downloading Metagenomic Data with Higher Taxonomic Units by Levi Waldron ★ 1.1k
I'm sorry I missed the first post! Yes, it is easy to agglomerate ranks in curatedMetagenomicData datasets. See the example in the vignette…
Comment: Differene between the Wald and LRT test for time-series gene expression data by Denise • 0
This makes a lot of sense, thank you very much!
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