Showing : ATACSeqQC • reset
1
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439
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Error with BSgenome, wanting to analyse non-model species with ATACseqQC
ATACseqQC
updated 13 months ago by 68k • written 13 months ago by • 0
0
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0
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393
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Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
13 months ago danalvoronov ▴ 10
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7
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1.4k
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ATACseqQC shiftGAlignmentsList() problem
ATACseqQC ATACSeq
updated 13 months ago by ▴ 10 • written 16 months ago by • 0
0
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1
reply
844
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Error in ATACseqQC bamQC analysis
ATACSeq ATACseqQC
updated 2.2 years ago by ★ 1.3k • written 2.2 years ago by • 0
0
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0
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837
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[ATACseqQC] NA values in sigs makes heatmap not completed
ATACseqQC ATACSeq
3.1 years ago hyjforesight • 0
1
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7
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1.9k
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TSSEscore function in ATACseqQC package
ATACseqQC
3.2 years ago Liu Yu-Yu • 0
0
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3
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1.5k
views
package for ATACseq data analysis
SequencingData ATACSeq ATACseqQC
updated 2.6 years ago by ★ 5.2k • written 3.5 years ago by ▴ 40
0
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0
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601
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ATACseqQC function fragSizeDist returns error
fragSizeDist ATACseqQC
3.6 years ago xuyao15927402897 • 0
0
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0
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689
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NAs in TSSE for certain windows
ATACseqQC
3.6 years ago red_bricks ▴ 60
0
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2
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2.0k
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*** caught segfault *** address 0xffffffff9a378e20, cause 'memory not mapped'
ATACseqQC
3.8 years ago Nolan • 0
0
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9
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4.9k
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No peak corresponding to the nucleosome-free regions is observed in Fragment size distribution of ATAC-seq
ATACseqQC Fragmentsizedistribution ATAC-seq
3.9 years ago Xiaojie Cheng • 0
1
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4
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1.5k
views
How to use a fimo BED output as GRanges object in factorFootprints from ATACseqQC
ATACseqQC
updated 4.6 years ago by ★ 4.3k • written 4.6 years ago by ▴ 10
0
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4
replies
2.5k
views
ATACseqQC R package for QC scores (TSS, FRIP, NFR, IDR)
ATACseqQC atacseq R
updated 4.6 years ago by ★ 1.3k • written 4.6 years ago by • 0
1
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2
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12k
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Interpreting TSS Enrichment Score Summary
atacseq atacseqqc tss enrichment
updated 4.6 years ago by ★ 1.3k • written 4.7 years ago by • 0
1
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4
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1.3k
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Subsampling when adjusting the read start sites in the ATACseqQC guide
atacseqqc r
4.7 years ago Arpi Beshlikyan • 0
0
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5
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1.9k
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ATACSeqQC - error when splitting files using mm10
atacseqqc atac-seq R bioconductor rsamtools
updated 4.9 years ago by ★ 4.0k • written 4.9 years ago by • 0
0
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5
replies
2.1k
views
ATACseqQC installation fails at shiny step
ATACseqQC
updated 5.6 years ago by 68k • written 5.6 years ago by • 0
0
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2
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1.2k
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factorFootprints, bindingSites and Profile.segmentation
ATACSeqQC factorFootprints
updated 5.7 years ago by ★ 4.3k • written 5.7 years ago by • 0
1
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2
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1.8k
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ATACseqQC function bamSplit returns error when input .bam is from mouse
ATACseqQC
5.7 years ago beiting ▴ 30
1
vote
11
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3.0k
views
ATAC-QC shiftGAlignmentsList function
ATAC-seq ATACseqQC
updated 5.7 years ago by ★ 4.3k • written 5.7 years ago by • 0
0
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7
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2.1k
views
ATACseqQC splitGAlignmentsByCut: strand values must be in '+' '-' '*'
ATACseqQC R
updated 5.7 years ago by ★ 4.3k • written 5.7 years ago by • 0
0
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1
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1.3k
views
ATAC-QC fragSizeDist function
ATAC-seq ATACseqQC
updated 5.7 years ago by ★ 4.3k • written 5.7 years ago by • 0
0
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7
replies
2.2k
views
ATACseqQC shiftGAlignmentsList leads to (all(elementNROWS)>3) is not TRUE error
ATACseqQC ATAC ATACseq software error Tutorial
updated 5.8 years ago by ★ 13k • written 5.8 years ago by • 0
0
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6
replies
2.4k
views
atacseqQC error while splittin the bamfile
ATACseqQC ATAC-seq error split bam file
updated 5.9 years ago by • 0 • written 5.9 years ago by ▴ 10
0
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0
replies
996
views
Enough cell number or not based on library complexity evaluation by ATACseqQC?
ATACseqQC ATAC-Seq Library complexity estimateLibComplexity
6.0 years ago Gary ▴ 20
2
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5
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1.8k
views
The meaning of results produced by the bamQC function implemented in the ATACseqQC
ATACseqQC bamQC ATAC-Seq totalQNAMEs MAPQ
updated 6.1 years ago by ★ 4.3k • written 6.1 years ago by ▴ 20
11
votes
21
replies
6.4k
views
How about our ATAC-Seq data quality analyzed by ATACseqQC
ATACseqQC ATAC-Seq quality analysis fragment size distribution library complexity
updated 6.2 years ago by ★ 4.3k • written 6.2 years ago by ▴ 20
0
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3
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1.3k
views
Compare the DNA footprinting between different samples when using ATACseqQC
atacseqqc
updated 6.7 years ago by ★ 1.3k • written 6.7 years ago by ▴ 10
0
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9
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2.0k
views
use factorFootprints function in ATACseqQC to get DNA footprinting for certain gene region
ATACseqQC
updated 6.7 years ago by ★ 4.3k • written 6.7 years ago by ▴ 10
0
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1
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1.3k
views
ATACseqQC: a few questions
ATACseqQC
updated 6.8 years ago by ★ 4.3k • written 6.8 years ago by • 0
0
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1
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1.1k
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ATACseqQC questions in R language
atacseqqc
updated 6.8 years ago by ★ 1.3k • written 6.8 years ago by • 0
0
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1
reply
2.0k
views
Issue installing packages ATACseqQC and GO.db
GO.db biocinstaller package installation atacseqqc
updated 7.0 years ago by ★ 1.3k • written 7.0 years ago by • 0
0
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7
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2.7k
views
ATACseqQC memory overflow issue
atac-seq software error atacseqqc
updated 7.1 years ago by • 0 • written 7.1 years ago by ▴ 10
0
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2
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1.3k
views
ATACseqQC needs too much memory
ATACseqQC
updated 7.3 years ago by ★ 4.3k • written 7.3 years ago by • 0
5
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9
replies
4.6k
views
mm10 phastCons data for use with ATACseqQC
ATACseqQC bsgenome phastcons rtracklayer
updated 7.9 years ago by ★ 1.3k • written 7.9 years ago by ▴ 10
35 results • Page 1 of 1
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Comment: DESeq2 - human data, weird results, troubleshooting by bd2000 ▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin by James W. MacDonald 68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ATpoint ★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt by darylruiz6545 • 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash by Alex • 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
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Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
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