Showing : ATACseq • reset
1
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9.3k
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Interpreting TSS Enrichment Score Summary
atacseq atacseqqc tss enrichment
updated 3.7 years ago by ★ 1.3k • written 3.8 years ago by • 0
2
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5
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4.5k
views
using DESeq2 for ATAC analyses
ATACSeq DESeq2
updated 21 months ago by ▴ 20 • written 2.6 years ago by ▴ 20
2
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5
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3.4k
views
News: New in DiffBind 3.2: dba.plotProfile() - Peak profiles and profile heatmaps
profileplyr ATACSeq DiffBind ComplexHeatmap ChIPSeq
updated 17 months ago by • 0 • written 3.0 years ago by ★ 5.2k
8
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13
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2.8k
views
Help with Error in DiffBind
DiffBind ATACSeq
13 months ago Chris ▴ 10
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10
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2.3k
views
DiffBind for ATACseq without replicates
DiffBind ATACseq replicate
updated 3.5 years ago by ★ 5.2k • written 3.6 years ago by ▴ 70
5
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8
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2.2k
views
how to construct a DBA object from count matrix
ChIPSeq ATACSeq differentially_occupied DiffBind
updated 23 months ago by ▴ 20 • written 2.8 years ago by ▴ 30
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2.0k
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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 5.2 years ago by 42k • written 5.2 years ago by • 0
0
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4
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1.9k
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ATACseqQC R package for QC scores (TSS, FRIP, NFR, IDR)
ATACseqQC atacseq R
updated 3.7 years ago by ★ 1.3k • written 3.7 years ago by • 0
0
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7
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1.8k
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ATACseqQC shiftGAlignmentsList leads to (all(elementNROWS)>3) is not TRUE error
ATACseqQC ATAC ATACseq software error Tutorial
updated 4.9 years ago by ★ 13k • written 4.9 years ago by • 0
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5
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How to add chr to an dba object before differential analysis to enable removing blacklisted regions
DiffBind ATACSeq
updated 3.1 years ago by 65k • written 3.2 years ago by • 0
2
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1
reply
1.6k
views
DiffBind on ATAC seq data
ATACSeq
updated 13 months ago by ★ 5.2k • written 13 months ago by ▴ 10
1
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3
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1.6k
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regionCounts() from csaw - object 'fancy_mseq' not found
ATACSeq regionCounts csaw
updated 5 months ago by • 0 • written 2.0 years ago by • 0
2
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4
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1.6k
views
DiffBind analysis for ATAC-Seq error Error processing one or more read files
ATACSeq DiffBind
updated 3.2 years ago by ★ 5.2k • written 3.2 years ago by • 0
1
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4
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1.5k
views
Binding matrix created by DiffBind
ATACSeq DiffBind
2.9 years ago sh.kazempour94 ▴ 10
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1
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1.5k
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News: Extensive updates in DiffBind 3.0
Normalization ATACSeq ChIPSeq DiffBind chipseq
written 3.5 years ago by ★ 5.2k
1
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3
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1.5k
views
Using block and design together in Diffbind 3.0?
DiffBind R ATACSeq
updated 2.8 years ago by ▴ 80 • written 2.8 years ago by • 0
2
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4
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1.5k
views
DiffBind confuses coordinates of peaks
atacseq diffbind
updated 5.6 years ago by ★ 5.2k • written 5.7 years ago by ▴ 10
2
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1
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1.4k
views
Using DiffBind with only a counts table?
diffbind ATACseq ATAC counts differential analysis
updated 5.1 years ago by ★ 5.2k • written 5.2 years ago by ▴ 10
0
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1
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1.4k
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Diffbind analysis of ATAC-seq data
ATACSeq DiffBind
updated 22 months ago by ★ 5.2k • written 23 months ago by • 0
0
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4
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1.3k
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DiffBind
ATACSeq DiFFBind
3.1 years ago • updated 3.0 years ago Riba Michela ▴ 90
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2
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1.2k
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long computing time for TSS enrichment score
ATACSeq
updated 8 months ago by • 0 • written 20 months ago by • 0
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2
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1.2k
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calculating TSS enrichment from ATACseq data
GenomicRanges Views ATACseq TSS
5.0 years ago tangming2005 ▴ 190
0
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2
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1.2k
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mogsa on RNA-seq and ATAC-seq data
mogsa atacseq
updated 5.9 years ago by • 0 • written 5.9 years ago by ▴ 30
0
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3
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1.1k
views
package for ATACseq data analysis
SequencingData ATACSeq ATACseqQC
updated 21 months ago by ★ 5.2k • written 2.6 years ago by ▴ 30
5
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8
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1.1k
views
Help with error install csaw
ChIPSeq ATACSeq
written 13 months ago by ▴ 10
2
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3
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968
views
DiffBind always reverts to default normalization
ATACSeq Normalization DiffBind
2.1 years ago • updated 24 months ago bers.anthrope • 0
4
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6
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948
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Positive and negative value fold value in ATAC seq using DiffBind
DiffBind ATACSeq
13 months ago Chris ▴ 10
3
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5
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872
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How to annotate genes from results of DiffBind
ATACSeq
updated 12 months ago by 65k • written 13 months ago by ▴ 10
0
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2
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864
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DiffBind dropping peaks in ATAC-seq data
DiffBind ATACSeq
updated 9 months ago by ★ 1.6k • written 9 months ago by • 0
0
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0
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Job: Postdoc position in integrated omics at Karolinska Institute, Stockholm
ATACSeq multiOmicsViz scRNAseq JobPosting
22 months ago Sebastian Lewandowski • 0
0
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7
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677
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ATACseqQC shiftGAlignmentsList() problem
ATACseqQC ATACSeq
updated 10 weeks ago by ▴ 10 • written 5 months ago by • 0
0
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1
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664
views
DiffBind- differentiate between new peaks and gain peaks
ATAC DiffBind ATACSeq
updated 15 months ago by ★ 5.2k • written 15 months ago by • 0
0
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0
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599
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[ATACseqQC] NA values in sigs makes heatmap not completed
ATACseqQC ATACSeq
2.2 years ago hyjforesight • 0
0
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0
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585
views
How we could calculate the sample size for ATAC seq and single cell RNA seq, respectively?
singlecellRNAseq ATACseq sample-size
18 months ago gogniu • 0
0
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1
reply
573
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Error in ATACseqQC bamQC analysis
ATACSeq ATACseqQC
updated 16 months ago by ★ 1.3k • written 16 months ago by • 0
0
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0
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419
views
DiffBind dba.count() crash/can't finish problems
dba.count DiffBind ATACSeq
updated 7 months ago by 65k • written 7 months ago by • 0
0
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1
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317
views
Extracting binding matrix with raw counts from DiffBind in ATAC-seq data not working
DiffBind ATACSeq
3 months ago isaromero8888 • 0
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0
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271
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ATACseq- Counts around TSS plot
DiffBind ATACSeq
4 months ago inna.gur • 0
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0
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257
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Which normalization should I do use for ATAC Seq using DiffBind
DiffBind edgeR ATACSeq DESeq2
3 months ago Jawahar • 0
0
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4
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257
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Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind DESeq2 ATACSeq
28 days ago • updated 25 days ago lonn • 0
0
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0
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DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind ATACSeq
6 weeks ago Pierre Lindenbaum ▴ 10
41 results • Page 1 of 1
Recent ...
Replies
Comment: error running enricher from clusterprofiler by Yael • 0
It worked!!! Thanks alot, i think something in the gene_list wasnt right... Thanks agian
Comment: Create protein sequences including variants from a VCF file by Yun • 0
This cannot work for a SNV file, since `injectSNPs` need a `SNPlocs` object
Comment: Can log2cpm be used for proteomics data normalization? by Daniel • 0
Thank you for the quick reply and I apologize for it being on the wrong thread but the "post tag" function wasn't working properly.
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Patadù ▴ 10
I have arranged the code again following the other post and also the script you suggested. Now, I managed to install `org.Vdahliae.eg.db`. …
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Patadù ▴ 10
Thanks again Guido, I will try to run the script you have suggested and see if I can install the package. Yes, I have seen this message a…
Votes
Answer: Trim/Filter out-of-bounds GRanges
Comment: How to correctly adjust for gender in edgeR
Create protein sequences including variants from a VCF file
A: DEXSeq design formula
Answer: SGSeq: moving toward diffex from SGSeq analysis
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