Showing : ATACSeqQC • reset
1
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366
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Error with BSgenome, wanting to analyse non-model species with ATACseqQC
ATACseqQC
updated 8 months ago by 67k • written 8 months ago by • 0
0
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0
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300
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Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
8 months ago danalvoronov ▴ 10
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
0
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1
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761
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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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771
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[ATACseqQC] NA values in sigs makes heatmap not completed
ATACseqQC ATACSeq
2.7 years ago hyjforesight • 0
1
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7
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1.7k
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TSSEscore function in ATACseqQC package
ATACseqQC
2.8 years ago Liu Yu-Yu • 0
0
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3
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1.3k
views
package for ATACseq data analysis
SequencingData ATACSeq ATACseqQC
updated 2.2 years ago by ★ 5.2k • written 3.1 years ago by ▴ 40
0
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0
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555
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ATACseqQC function fragSizeDist returns error
fragSizeDist ATACseqQC
3.2 years ago xuyao15927402897 • 0
0
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0
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623
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NAs in TSSE for certain windows
ATACseqQC
3.2 years ago red_bricks ▴ 60
0
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2
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1.7k
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*** caught segfault *** address 0xffffffff9a378e20, cause 'memory not mapped'
ATACseqQC
3.4 years ago Nolan • 0
0
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9
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4.3k
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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
3.6 years ago • updated 3.5 years ago Xiaojie Cheng • 0
1
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4
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1.3k
views
How to use a fimo BED output as GRanges object in factorFootprints from ATACseqQC
ATACseqQC
updated 4.2 years ago by ★ 4.3k • written 4.2 years ago by ▴ 10
0
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4
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2.3k
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ATACseqQC R package for QC scores (TSS, FRIP, NFR, IDR)
ATACseqQC atacseq R
updated 4.2 years ago by ★ 1.3k • written 4.2 years ago by • 0
1
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2
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11k
views
Interpreting TSS Enrichment Score Summary
atacseq atacseqqc tss enrichment
updated 4.2 years ago by ★ 1.3k • written 4.3 years ago by • 0
1
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4
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1.1k
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Subsampling when adjusting the read start sites in the ATACseqQC guide
atacseqqc r
4.3 years ago Arpi Beshlikyan • 0
0
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5
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1.7k
views
ATACSeqQC - error when splitting files using mm10
atacseqqc atac-seq R bioconductor rsamtools
updated 4.5 years ago by ★ 4.0k • written 4.5 years ago by • 0
0
votes
5
replies
1.9k
views
ATACseqQC installation fails at shiny step
ATACseqQC
updated 5.2 years ago by 67k • written 5.2 years ago by • 0
0
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2
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1.1k
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factorFootprints, bindingSites and Profile.segmentation
ATACSeqQC factorFootprints
updated 5.3 years ago by ★ 4.3k • written 5.3 years ago by • 0
1
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2
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1.6k
views
ATACseqQC function bamSplit returns error when input .bam is from mouse
ATACseqQC
5.3 years ago beiting ▴ 30
1
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11
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2.7k
views
ATAC-QC shiftGAlignmentsList function
ATAC-seq ATACseqQC
updated 5.3 years ago by ★ 4.3k • written 5.3 years ago by • 0
0
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7
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1.8k
views
ATACseqQC splitGAlignmentsByCut: strand values must be in '+' '-' '*'
ATACseqQC R
updated 5.3 years ago by ★ 4.3k • written 5.3 years ago by • 0
0
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1
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1.2k
views
ATAC-QC fragSizeDist function
ATAC-seq ATACseqQC
updated 5.3 years ago by ★ 4.3k • written 5.3 years ago by • 0
0
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7
replies
2.1k
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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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6
replies
2.2k
views
atacseqQC error while splittin the bamfile
ATACseqQC ATAC-seq error split bam file
updated 5.5 years ago by • 0 • written 5.5 years ago by ▴ 10
0
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0
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909
views
Enough cell number or not based on library complexity evaluation by ATACseqQC?
ATACseqQC ATAC-Seq Library complexity estimateLibComplexity
5.6 years ago Gary ▴ 20
2
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5
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1.7k
views
The meaning of results produced by the bamQC function implemented in the ATACseqQC
ATACseqQC bamQC ATAC-Seq totalQNAMEs MAPQ
updated 5.7 years ago by ★ 4.3k • written 5.7 years ago by ▴ 20
11
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21
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5.8k
views
How about our ATAC-Seq data quality analyzed by ATACseqQC
ATACseqQC ATAC-Seq quality analysis fragment size distribution library complexity
updated 5.8 years ago by ★ 4.3k • written 5.8 years ago by ▴ 20
0
votes
3
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1.2k
views
Compare the DNA footprinting between different samples when using ATACseqQC
atacseqqc
updated 6.3 years ago by ★ 1.3k • written 6.3 years ago by ▴ 10
0
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9
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1.8k
views
use factorFootprints function in ATACseqQC to get DNA footprinting for certain gene region
ATACseqQC
updated 6.3 years ago by ★ 4.3k • written 6.3 years ago by ▴ 10
0
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1
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1.2k
views
ATACseqQC: a few questions
ATACseqQC
updated 6.4 years ago by ★ 4.3k • written 6.4 years ago by • 0
0
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1
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1.0k
views
ATACseqQC questions in R language
atacseqqc
updated 6.4 years ago by ★ 1.3k • written 6.4 years ago by • 0
0
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1
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1.9k
views
Issue installing packages ATACseqQC and GO.db
GO.db biocinstaller package installation atacseqqc
updated 6.7 years ago by ★ 1.3k • written 6.7 years ago by • 0
0
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7
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2.5k
views
ATACseqQC memory overflow issue
atac-seq software error atacseqqc
updated 6.7 years ago by • 0 • written 6.8 years ago by ▴ 10
0
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2
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1.2k
views
ATACseqQC needs too much memory
ATACseqQC
updated 6.9 years ago by ★ 4.3k • written 6.9 years ago by • 0
5
votes
9
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4.3k
views
mm10 phastCons data for use with ATACseqQC
ATACseqQC bsgenome phastcons rtracklayer
updated 7.5 years ago by ★ 1.3k • written 7.5 years ago by ▴ 10
35 results • Page 1 of 1
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Answer: [How to construct a model.matrix ] by Gordon Smyth 51k
> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by rania.alanany • 0
Hi Robert, Thank you for the explanation, But I am still little bit confused, Is the annotation package (TxDb.Hsapiens.UCSC.hg38.knownGene)…
Comment: Merge Replicates vs Mixed Model by abadgerw • 0
@gabrielhoffman any insight?
Comment: makeContrastsDream for Interaction by abadgerw • 0
@gabrielhoffman any insight?
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta by Michael Love 42k
That is the rows that did converge.
Votes
A: Some questions for remove batch effect by using mnnCorrect
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: [How to construct a model.matrix ]
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
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