Showing : ATACseqQC • reset
11
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21
replies
5.0k
views
How about our ATAC-Seq data quality analyzed by ATACseqQC
ATACseqQC ATAC-Seq quality analysis fragment size distribution library complexity
updated 5.2 years ago by ★ 4.3k • written 5.2 years ago by ▴ 20
5
votes
9
replies
3.8k
views
mm10 phastCons data for use with ATACseqQC
ATACseqQC bsgenome phastcons rtracklayer
updated 7.0 years ago by ★ 1.3k • written 7.0 years ago by ▴ 10
2
votes
5
replies
1.5k
views
The meaning of results produced by the bamQC function implemented in the ATACseqQC
ATACseqQC bamQC ATAC-Seq totalQNAMEs MAPQ
updated 5.2 years ago by ★ 4.3k • written 5.2 years ago by ▴ 20
1
vote
7
replies
1.4k
views
TSSEscore function in ATACseqQC package
ATACseqQC
2.3 years ago • updated 2.2 years ago Liu Yu-Yu • 0
1
vote
4
replies
1.1k
views
How to use a fimo BED output as GRanges object in factorFootprints from ATACseqQC
ATACseqQC
updated 3.7 years ago by ★ 4.3k • written 3.7 years ago by ▴ 10
1
vote
1
reply
183
views
Error with BSgenome, wanting to analyse non-model species with ATACseqQC
ATACseqQC
updated 8 weeks ago by 65k • written 8 weeks ago by • 0
1
vote
2
replies
1.4k
views
ATACseqQC function bamSplit returns error when input .bam is from mouse
ATACseqQC
4.8 years ago beiting ▴ 30
1
vote
11
replies
2.3k
views
ATAC-QC shiftGAlignmentsList function
ATAC-seq ATACseqQC
updated 4.8 years ago by ★ 4.3k • written 4.8 years ago by • 0
1
vote
4
replies
963
views
Subsampling when adjusting the read start sites in the ATACseqQC guide
atacseqqc r
3.7 years ago Arpi Beshlikyan • 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 3.7 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
1
reply
970
views
ATAC-QC fragSizeDist function
ATAC-seq ATACseqQC
updated 4.8 years ago by ★ 4.3k • written 4.8 years ago by • 0
0
votes
7
replies
1.6k
views
ATACseqQC splitGAlignmentsByCut: strand values must be in '+' '-' '*'
ATACseqQC R
updated 4.8 years ago by ★ 4.3k • written 4.8 years ago by • 0
0
votes
2
replies
988
views
factorFootprints, bindingSites and Profile.segmentation
ATACSeqQC factorFootprints
updated 4.7 years ago by ★ 4.3k • written 4.7 years ago by • 0
0
votes
5
replies
1.4k
views
ATACSeqQC - error when splitting files using mm10
atacseqqc atac-seq R bioconductor rsamtools
updated 4.0 years ago by ★ 3.9k • written 4.0 years ago by • 0
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
0
votes
2
replies
1.4k
views
*** caught segfault *** address 0xffffffff9a378e20, cause 'memory not mapped'
ATACseqQC
2.9 years ago Nolan • 0
0
votes
9
replies
3.5k
views
No peak corresponding to the nucleosome-free regions is observed in Fragment size distribution of ATAC-seq
ATACseqQC Fragmentsizedistribution ATAC-seq
3.0 years ago Xiaojie Cheng • 0
0
votes
7
replies
654
views
ATACseqQC shiftGAlignmentsList() problem
ATACseqQC ATACSeq
updated 9 weeks ago by ▴ 10 • written 5 months ago by • 0
0
votes
0
replies
485
views
NAs in TSSE for certain windows
ATACseqQC
2.7 years ago red_bricks ▴ 50
0
votes
1
reply
563
views
Error in ATACseqQC bamQC analysis
ATACSeq ATACseqQC
updated 15 months ago by ★ 1.3k • written 15 months ago by • 0
0
votes
0
replies
457
views
ATACseqQC function fragSizeDist returns error
fragSizeDist ATACseqQC
2.7 years ago xuyao15927402897 • 0
0
votes
3
replies
1.1k
views
package for ATACseq data analysis
SequencingData ATACSeq ATACseqQC
updated 20 months ago by ★ 5.2k • written 2.6 years ago by ▴ 30
0
votes
0
replies
583
views
[ATACseqQC] NA values in sigs makes heatmap not completed
ATACseqQC ATACSeq
2.1 years ago hyjforesight • 0
0
votes
5
replies
1.7k
views
ATACseqQC installation fails at shiny step
ATACseqQC
updated 4.7 years ago by 65k • written 4.7 years ago by • 0
0
votes
0
replies
116
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
9 weeks ago danalvoronov ▴ 10
0
votes
2
replies
1.1k
views
ATACseqQC needs too much memory
ATACseqQC
updated 6.4 years ago by ★ 4.3k • written 6.4 years ago by • 0
0
votes
7
replies
2.2k
views
ATACseqQC memory overflow issue
atac-seq software error atacseqqc
updated 6.2 years ago by • 0 • written 6.2 years ago by ▴ 10
0
votes
1
reply
1.7k
views
Issue installing packages ATACseqQC and GO.db
GO.db biocinstaller package installation atacseqqc
updated 6.1 years ago by ★ 1.3k • written 6.1 years ago by • 0
0
votes
1
reply
911
views
ATACseqQC questions in R language
atacseqqc
updated 5.9 years ago by ★ 1.3k • written 5.9 years ago by • 0
0
votes
1
reply
1.0k
views
ATACseqQC: a few questions
ATACseqQC
updated 5.8 years ago by ★ 4.3k • written 5.8 years ago by • 0
0
votes
9
replies
1.5k
views
use factorFootprints function in ATACseqQC to get DNA footprinting for certain gene region
ATACseqQC
updated 5.8 years ago by ★ 4.3k • written 5.8 years ago by ▴ 10
0
votes
3
replies
1.0k
views
Compare the DNA footprinting between different samples when using ATACseqQC
atacseqqc
updated 5.8 years ago by ★ 1.3k • written 5.8 years ago by ▴ 10
0
votes
0
replies
776
views
Enough cell number or not based on library complexity evaluation by ATACseqQC?
ATACseqQC ATAC-Seq Library complexity estimateLibComplexity
5.1 years ago Gary ▴ 20
0
votes
6
replies
1.9k
views
atacseqQC error while splittin the bamfile
ATACseqQC ATAC-seq error split bam file
updated 5.0 years ago by • 0 • written 5.0 years ago by ▴ 10
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I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
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Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
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