Showing : ATACseqQC • reset
1
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171
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Error with BSgenome, wanting to analyse non-model species with ATACseqQC
ATACseqQC
updated 6 weeks ago by 65k • written 6 weeks ago by • 0
0
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0
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105
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Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
7 weeks ago danalvoronov ▴ 10
0
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7
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621
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ATACseqQC shiftGAlignmentsList() problem
ATACseqQC ATACSeq
updated 7 weeks ago by ▴ 10 • written 4 months ago by • 0
0
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1
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543
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Error in ATACseqQC bamQC analysis
ATACSeq ATACseqQC
updated 15 months ago by ★ 1.3k • written 15 months ago by • 0
0
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0
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562
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[ATACseqQC] NA values in sigs makes heatmap not completed
ATACseqQC ATACSeq
2.1 years ago hyjforesight • 0
1
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7
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1.4k
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TSSEscore function in ATACseqQC package
ATACseqQC
2.2 years ago Liu Yu-Yu • 0
0
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3
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1.1k
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package for ATACseq data analysis
SequencingData ATACSeq ATACseqQC
updated 20 months ago by ★ 5.1k • written 2.5 years ago by ▴ 30
0
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0
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450
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ATACseqQC function fragSizeDist returns error
fragSizeDist ATACseqQC
2.6 years ago xuyao15927402897 • 0
0
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0
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477
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NAs in TSSE for certain windows
ATACseqQC
2.7 years ago red_bricks ▴ 50
0
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2
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1.4k
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*** caught segfault *** address 0xffffffff9a378e20, cause 'memory not mapped'
ATACseqQC
2.9 years ago Nolan • 0
0
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9
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3.4k
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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
3.0 years ago Xiaojie Cheng • 0
1
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4
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1.1k
views
How to use a fimo BED output as GRanges object in factorFootprints from ATACseqQC
ATACseqQC
updated 3.6 years ago by ★ 4.3k • written 3.6 years ago by ▴ 10
0
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4
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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
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2
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9.2k
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Interpreting TSS Enrichment Score Summary
atacseq atacseqqc tss enrichment
updated 3.7 years ago by ★ 1.3k • written 3.7 years ago by • 0
1
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4
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950
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Subsampling when adjusting the read start sites in the ATACseqQC guide
atacseqqc r
3.7 years ago Arpi Beshlikyan • 0
0
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5
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1.4k
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ATACSeqQC - error when splitting files using mm10
atacseqqc atac-seq R bioconductor rsamtools
updated 3.9 years ago by ★ 3.9k • written 3.9 years ago by • 0
0
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5
replies
1.6k
views
ATACseqQC installation fails at shiny step
ATACseqQC
updated 4.6 years ago by 65k • written 4.6 years ago by • 0
0
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2
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974
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factorFootprints, bindingSites and Profile.segmentation
ATACSeqQC factorFootprints
updated 4.7 years ago by ★ 4.3k • written 4.7 years ago by • 0
1
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2
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1.4k
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ATACseqQC function bamSplit returns error when input .bam is from mouse
ATACseqQC
4.7 years ago beiting ▴ 30
1
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11
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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
0
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7
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1.5k
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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
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1
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942
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ATAC-QC fragSizeDist function
ATAC-seq ATACseqQC
updated 4.8 years ago by ★ 4.3k • written 4.8 years ago by • 0
0
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7
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1.7k
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ATACseqQC shiftGAlignmentsList leads to (all(elementNROWS)>3) is not TRUE error
ATACseqQC ATAC ATACseq software error Tutorial
updated 4.8 years ago by ★ 13k • written 4.8 years ago by • 0
0
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6
replies
1.9k
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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
0
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0
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764
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
2
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5
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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
11
votes
21
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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
0
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3
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1.0k
views
Compare the DNA footprinting between different samples when using ATACseqQC
atacseqqc
updated 5.7 years ago by ★ 1.3k • written 5.8 years ago by ▴ 10
0
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9
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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
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1
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1.0k
views
ATACseqQC: a few questions
ATACseqQC
updated 5.8 years ago by ★ 4.3k • written 5.8 years ago by • 0
0
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1
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898
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ATACseqQC questions in R language
atacseqqc
updated 5.9 years ago by ★ 1.3k • written 5.9 years ago by • 0
0
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1
reply
1.6k
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
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7
replies
2.1k
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
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2
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1.1k
views
ATACseqQC needs too much memory
ATACseqQC
updated 6.4 years ago by ★ 4.3k • written 6.4 years ago by • 0
5
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9
replies
3.8k
views
mm10 phastCons data for use with ATACseqQC
ATACseqQC bsgenome phastcons rtracklayer
updated 6.9 years ago by ★ 1.3k • written 6.9 years ago by ▴ 10
35 results • Page 1 of 1
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Answer: Why p value inconsistent when using different number of pathway score? by ATpoint ★ 4.0k
Same answer as here: https://support.bioconductor.org/p/9157606/ Adding or removing data (samples, genes, pathways, observations...) chang…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Thanks Robert!
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Robert Castelo ★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
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Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
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