Showing : ATACseqQC • reset
1
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168
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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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104
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Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
6 weeks ago danalvoronov ▴ 10
0
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7
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616
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ATACseqQC shiftGAlignmentsList() problem
ATACseqQC ATACSeq
updated 6 weeks ago by ▴ 10 • written 4 months ago by • 0
0
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1
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538
views
Error in ATACseqQC bamQC analysis
ATACSeq ATACseqQC
updated 15 months ago by ★ 1.3k • written 15 months ago by • 0
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0
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558
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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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448
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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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474
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NAs in TSSE for certain windows
ATACseqQC
2.6 years ago red_bricks ▴ 50
0
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2
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1.3k
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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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9.1k
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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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947
views
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
views
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
replies
1.4k
views
ATACseqQC function bamSplit returns error when input .bam is from mouse
ATACseqQC
4.7 years ago beiting ▴ 30
1
vote
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
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
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1
reply
941
views
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
replies
1.7k
views
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
views
atacseqQC error while splittin the bamfile
ATACseqQC ATAC-seq error split bam file
updated 4.9 years ago by • 0 • written 5.0 years ago by ▴ 10
0
votes
0
replies
761
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
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
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 5.7 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
reply
898
views
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
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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
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
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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Comment: DESeq2 setting significant p-value by Michael Love 41k
It does not resort. Also the dataset and results will have the same row names from object creation throughout the analysis.
Comment: Input Question for deseq.r by ATpoint ★ 4.0k
It is unclear what "deseq.r" is. It is not part of DESeq2, and almost certainly no part of RSeqAn. Please add details, and keep in mind tha…
Answer: DESEQ2 output gives multiple groups when only 2 groups are present by ATpoint ★ 4.0k
In the first PCA plot there is almost certainly some hidden character like whitespaces in the column from colData that encodes this group. …
Answer: A ComBat-seq issue: the covariates are confounded by ATpoint ★ 4.0k
```r > table(batch, group) group batch egfr gfp her2 1 0 12 5 2 6 6 0 ``` All of her2 is batch2, all of egfr i…
Comment: DESeq2 setting significant p-value by Dev • 0
after running DESeq2 does it sort the value on the basis of pvalue, or anything, or does it give the data back in the input format I have …
Votes
Using GRanges and IRanges to simply get all chromosome data
A: Using GRanges and IRanges to simply get all chromosome data
Comment: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
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