Showing : ATACseq • reset
0
votes
4
replies
257
views
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
votes
0
replies
107
views
DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind ATACSeq
6 weeks ago Pierre Lindenbaum ▴ 10
0
votes
1
reply
317
views
Extracting binding matrix with raw counts from DiffBind in ATAC-seq data not working
DiffBind ATACSeq
3 months ago isaromero8888 • 0
0
votes
0
replies
257
views
Which normalization should I do use for ATAC Seq using DiffBind
DiffBind edgeR ATACSeq DESeq2
3 months ago Jawahar • 0
0
votes
0
replies
271
views
ATACseq- Counts around TSS plot
DiffBind ATACSeq
4 months ago inna.gur • 0
0
votes
7
replies
677
views
ATACseqQC shiftGAlignmentsList() problem
ATACseqQC ATACSeq
updated 10 weeks ago by ▴ 10 • written 5 months ago by • 0
0
votes
0
replies
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
votes
2
replies
864
views
DiffBind dropping peaks in ATAC-seq data
DiffBind ATACSeq
updated 9 months ago by ★ 1.6k • written 9 months ago by • 0
4
votes
6
replies
948
views
Positive and negative value fold value in ATAC seq using DiffBind
DiffBind ATACSeq
13 months ago Chris ▴ 10
3
votes
5
replies
872
views
How to annotate genes from results of DiffBind
ATACSeq
updated 12 months ago by 65k • written 13 months ago by ▴ 10
5
votes
8
replies
1.1k
views
Help with error install csaw
ChIPSeq ATACSeq
written 13 months ago by ▴ 10
8
votes
13
replies
2.8k
views
Help with Error in DiffBind
DiffBind ATACSeq
13 months ago Chris ▴ 10
2
votes
1
reply
1.6k
views
DiffBind on ATAC seq data
ATACSeq
updated 13 months ago by ★ 5.2k • written 13 months ago by ▴ 10
0
votes
1
reply
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
votes
1
reply
573
views
Error in ATACseqQC bamQC analysis
ATACSeq ATACseqQC
updated 16 months ago by ★ 1.3k • written 16 months ago by • 0
0
votes
0
replies
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
votes
2
replies
1.2k
views
long computing time for TSS enrichment score
ATACSeq
updated 8 months ago by • 0 • written 20 months ago by • 0
0
votes
0
replies
727
views
Job: Postdoc position in integrated omics at Karolinska Institute, Stockholm
ATACSeq multiOmicsViz scRNAseq JobPosting
22 months ago Sebastian Lewandowski • 0
0
votes
1
reply
1.4k
views
Diffbind analysis of ATAC-seq data
ATACSeq DiffBind
updated 22 months ago by ★ 5.2k • written 23 months ago by • 0
1
vote
3
replies
1.6k
views
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
votes
3
replies
968
views
DiffBind always reverts to default normalization
ATACSeq Normalization DiffBind
2.1 years ago • updated 24 months ago bers.anthrope • 0
0
votes
0
replies
599
views
[ATACseqQC] NA values in sigs makes heatmap not completed
ATACseqQC ATACSeq
2.2 years ago hyjforesight • 0
2
votes
5
replies
4.5k
views
using DESeq2 for ATAC analyses
ATACSeq DESeq2
updated 21 months ago by ▴ 20 • written 2.6 years ago by ▴ 20
0
votes
3
replies
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
1
vote
3
replies
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
5
votes
8
replies
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
1
vote
4
replies
1.5k
views
Binding matrix created by DiffBind
ATACSeq DiffBind
2.9 years ago sh.kazempour94 ▴ 10
2
votes
5
replies
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
0
votes
4
replies
1.3k
views
DiffBind
ATACSeq DiFFBind
3.1 years ago • updated 3.0 years ago Riba Michela ▴ 90
1
vote
5
replies
1.7k
views
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
votes
4
replies
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
vote
1
reply
1.5k
views
News: Extensive updates in DiffBind 3.0
Normalization ATACSeq ChIPSeq DiffBind chipseq
written 3.5 years ago by ★ 5.2k
1
vote
10
replies
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
0
votes
4
replies
1.9k
views
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
1
vote
2
replies
9.3k
views
Interpreting TSS Enrichment Score Summary
atacseq atacseqqc tss enrichment
updated 3.7 years ago by ★ 1.3k • written 3.8 years ago by • 0
0
votes
7
replies
1.8k
views
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
0
votes
2
replies
1.2k
views
calculating TSS enrichment from ATACseq data
GenomicRanges Views ATACseq TSS
5.0 years ago tangming2005 ▴ 190
2
votes
1
reply
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
1
vote
2
replies
2.0k
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 5.2 years ago by 42k • written 5.2 years ago by • 0
2
votes
4
replies
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
0
votes
2
replies
1.2k
views
mogsa on RNA-seq and ATAC-seq data
mogsa atacseq
updated 5.9 years ago by • 0 • written 5.9 years ago by ▴ 30
41 results • Page 1 of 1
Recent ...
Replies
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…
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Guido Hooiveld ★ 4.0k
FWIW: based on [previous posts][1] it is suggested to install like this: install.packages(pkgs="./org.Vdahliae.eg.db", repos=NULL, typ…
Votes
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
Answer: How to design DEXSeq formula for multiple variables
Awards • All
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to boczniak767 ▴ 720
Popular Question to jmoon1194 • 0
Popular Question to mat.lesche ▴ 90
Popular Question to jordi.planells • 0
Locations • All
France, just now
Sweden, 7 minutes ago
Israel, 10 minutes ago
United States, 11 minutes ago
United States, 14 minutes ago
Traffic: 865 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6