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CHIPQC
•
reset
0
votes
1
reply
283
views
Unevaluated error in ChIPQC combined with BiocParallel
BiocParallel
ChIPQC
written 5 months ago by
Young Boqin
• 0
2
votes
1
reply
2.0k
views
DiffBind: Error in if (res$config$bCorPlot) { : the condition has length > 1
DiffBind
ChIPQC
updated 2.5 years ago by
Rory Stark
★ 5.2k • written 2.6 years ago by
ryleehackley
• 0
1
vote
2
replies
1.3k
views
Could it be possible to get an older version of ChIPQC?
ChIPQC
ChIP-seq
DiffBind
Rory_Stark
2.7 years ago • updated 2.6 years ago
etiennedanis
• 0
4
votes
13
replies
4.9k
views
BiocParallel error with ChIPQC
BiocManager
ChIPQC
RSamtools
BiocParallel
updated 2.2 years ago by
Rory Stark
★ 5.2k • written 2.8 years ago by
etiennedanis
• 0
0
votes
1
reply
1.2k
views
saving png images and X11
ChipQC
updated 3.1 years ago by
ATpoint
★ 4.7k • written 3.1 years ago by
Bogdan
▴ 670
0
votes
0
replies
1.0k
views
Generate a custom annotation for ChIPQC
ChIPQC
updated 3.1 years ago by
James W. MacDonald
68k • written 3.1 years ago by
channie1001
• 0
0
votes
2
replies
1.2k
views
ChIP-seq or CUT&RUN enrichment
ChIPQC
ChIPpeakAnno
3.1 years ago
Bogdan
▴ 670
0
votes
0
replies
700
views
ChIPQC: Theme
ChIPQC
3.7 years ago
etiennedanis
• 0
0
votes
3
replies
1.2k
views
ChIPQC: Depths of coverage plot - Figure 1 of the ChIPQC report
ChIPQC
written 3.7 years ago by
etiennedanis
• 0
1
vote
2
replies
1.1k
views
ChIPQC: log2 or log10?
ChIPQC
3.7 years ago
etiennedanis
• 0
3
votes
1
reply
1.2k
views
ChIPQC 'Contigs of interest are not all in Bam file!!' error
ChIPQC
3.8 years ago
Jonah
▴ 20
0
votes
2
replies
1.4k
views
ChIPQC error in previously working code (BAM association error)
chipqc
updated 2.3 years ago by
stacy.genovese
• 0 • written 3.9 years ago by
Coby Viner
▴ 50
0
votes
2
replies
1.7k
views
Error while running ChIPQC
ChIPQC
updated 4.4 years ago by
Kevin Blighe
★ 4.0k • written 4.4 years ago by
zebasilio
• 0
0
votes
0
replies
1.5k
views
ChIPQC BiocParallel problems and how to select the "PeakCaller" for broad histone modification
ChIPQC
4.4 years ago
lida
• 0
2
votes
3
replies
2.2k
views
ChipQC 'names' attribute [9] must be the same length as the vector [2]'
chipqc
updated 10 months ago by
bandconductor
• 0 • written 4.5 years ago by
ZheFrench
▴ 60
2
votes
7
replies
2.5k
views
How to generate custom annotation for rat genome rn6 in ChIPQC
ChIPQC
annotation
rn6
updated 15 months ago by
Raghavaram
• 0 • written 4.5 years ago by
Frédéric Crémazy
• 0
0
votes
7
replies
2.5k
views
CHIPQC error regarding BiocParallel
CHIPQC
Diffbind
chipseq
rory stark
Thomas Carroll
updated 2.6 years ago by
arisarkar88
▴ 40 • written 4.9 years ago by
bioinfouser2
▴ 10
0
votes
0
replies
945
views
ChIPQC cross-coverage plot
chipqc
chip-seq
4.9 years ago
tuteja.reetu
• 0
0
votes
0
replies
807
views
Missing some plots and columns in my ChIPQC report
ChIPQC
BioConductor
5.1 years ago
mudithekanayake
• 0
0
votes
1
reply
1000
views
ChIPQC produces empty cross correlation plot
chipqc
cross correlation
5.2 years ago
nikhil.ashok.joshi
• 0
0
votes
1
reply
1.1k
views
ChIPQC: Error in summary.factor
ChIPQC
updated 5.3 years ago by
bl.lagerwaard
• 0 • written 5.5 years ago by
mahmoud.fassad.14
• 0
0
votes
0
replies
921
views
ChIPQC makes a neverending loop while using all chromosomes
chipqc
chipseq
ChIPQC
5.5 years ago
laura.mannarino
▴ 20
1
vote
1
reply
1.4k
views
ChIPQC: issues with report generation and QC metrics
ChIPQC
software error
5.5 years ago
ryleehackley
• 0
3
votes
6
replies
2.2k
views
Integer overflow issue with ChIPQC
ChIPQC
Rstudio
updated 5.7 years ago by
Martin Morgan
25k • written 5.7 years ago by
Nitesh Kumar Singh
▴ 30
0
votes
1
reply
1.7k
views
ChIPQC BiocParallel errors
ChIPQC
ChIPQC error
BiocParallel
5.7 years ago
minervajunjun
• 0
2
votes
4
replies
3.6k
views
ChIPQC error: "names' attribute [9] must be the same length as the vector [7]"
ChIPQC
updated 3.6 years ago by
Yue
• 0 • written 5.8 years ago by
analeigh.gui
▴ 20
0
votes
1
reply
1.4k
views
Unable to annotate in ChIPQC using yeast genome
ChIPQC
GenomicRanges
ChIPpeakAnno
updated 3.9 years ago by
Zender
• 0 • written 5.9 years ago by
bertb
• 0
2
votes
2
replies
1.6k
views
ChIPQC gives Bam file has 297 contigs Error: subscript contains out-of-bounds indices
ChIP-seq
ChIPQC
QC
updated 5.6 years ago by
zhenfeng.liu1
▴ 20 • written 6.1 years ago by
star
▴ 10
0
votes
4
replies
2.2k
views
ATAC-Seq peaks quality control with ChIPQC package, but getting error
ATAC-Seq
ChIPQC
updated 6.1 years ago by
James W. MacDonald
68k • written 6.1 years ago by
Subinoy Biswas
▴ 10
0
votes
6
replies
1.9k
views
ChiPQC: 1Error in 1:(2 * readlength(object)) : NA/NaN argument
ChiPQC
updated 6.1 years ago by
Martin Morgan
25k • written 6.1 years ago by
zebasilio
• 0
0
votes
1
reply
1.1k
views
ChIPQC error: NCList object is too deep
ChIPQC
updated 6.1 years ago by
Thomas Carroll
▴ 420 • written 6.2 years ago by
nikhil.ashok.joshi
• 0
0
votes
3
replies
1.5k
views
ChIPQC ERROR with "subscript out of bounds"
chipqc
6.2 years ago
Chevy Xu
• 0
2
votes
6
replies
2.7k
views
ChIPQC: error during annotation compilation
ChIPQC
updated 6.5 years ago by
Thomas Carroll
▴ 420 • written 6.5 years ago by
hdingwall
▴ 10
3
votes
5
replies
3.0k
views
ChIPQC - can't read in bam files
chipqc
chipqcreport
6.5 years ago
molly_the_minotaur
▴ 30
0
votes
0
replies
966
views
ChIPQC Error in names(res) <- nms
chipqc
6.6 years ago
gavrielmatt
▴ 30
1
vote
7
replies
3.4k
views
ChipQC not loading files
ChipQC
diffbind
updated 6.6 years ago by
Thomas Carroll
▴ 420 • written 6.6 years ago by
annap
• 0
0
votes
2
replies
1.2k
views
ChipQCreport coverage plot failure?
ChipQC
chipqcreport
6.6 years ago
tapio.envall
• 0
0
votes
4
replies
2.6k
views
ChIPQC error: "non-zero exit status"
software error
package installation
chipqc
txdb.hsapiens.ucsc.hg18.knowngene
updated 6.7 years ago by
Martin Morgan
25k • written 6.7 years ago by
hallie.s
• 0
1
vote
3
replies
3.5k
views
Downsampling ChIP-seq BAM files with spike in normalization factor before feeding into Diffbind
diffbind
chipseq
chipqc
updated 4.4 years ago by
Rory Stark
★ 5.2k • written 7.1 years ago by
bioinfouser2
▴ 10
0
votes
0
replies
1.4k
views
ChIPQC : ChIPQCreport : Error: Dimensions exceed 50 inches when saving plot with large sampleSheet
chipqc
7.1 years ago
ZheFrench
▴ 60
0
votes
0
replies
1.2k
views
ChIPQC 0 unmapped does not agree with the samtool generated stats
ChIPQC
7.3 years ago
ew152
• 0
0
votes
0
replies
1.4k
views
ChIPQC: Error in names(res) <- nms
ChIPQC
chip-seq
7.3 years ago
nbkingsley
• 0
5
votes
11
replies
2.6k
views
ChIPQC Error in .Call2 NCList object is too deep
ChIPQC
updated 7.4 years ago by
Thomas Carroll
▴ 420 • written 7.4 years ago by
Victor Goitea
▴ 10
0
votes
0
replies
1.1k
views
ChIPQC stops at chr3 for calculating shift
chipqc
7.5 years ago
psudyant
• 0
0
votes
1
reply
1.8k
views
Can ChIPQC analyze mandarin duck ChIP-Seq data?
ChIPQC
updated 7.5 years ago by
Thomas Carroll
▴ 420 • written 7.5 years ago by
Gary
▴ 20
2
votes
5
replies
2.2k
views
Diffbind: dba.plot retrieve variance explained
diffbind
chipqc
updated 7.5 years ago by
Rory Stark
★ 5.2k • written 7.6 years ago by
ZheFrench
▴ 60
0
votes
4
replies
1.9k
views
Unhelpful Errors Running ChIPQC on Computing Cluster
chipqc
chipqcreport
7.6 years ago • updated 7.5 years ago
jared.andrews07
▴ 30
0
votes
3
replies
1.6k
views
ChiPQC run time error
ChiPQC
updated 7.7 years ago by
Thomas Carroll
▴ 420 • written 7.7 years ago by
NANADAWONG
• 0
1
vote
3
replies
2.5k
views
ChipQC Error: first error: could not find function "seqlevels<-"
software error
chipqc
7.7 years ago
tirza.doniger
▴ 20
0
votes
1
reply
2.2k
views
PCR bottleneck coefficient (PBC)
chipqc
updated 7.7 years ago by
Rory Stark
★ 5.2k • written 7.7 years ago by
C T
▴ 140
50 results • Page
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Comment: DiffBind custom normalization factor
by
Abbie
• 0
Hello! Thanks so much for adding dba.normalize and all the documentation in the manual! I'm hoping I can ask a follow-up question here. I…
Answer: CpGs with genomic positions greater than the chromosome size in EPICv2?
by
James W. MacDonald
68k
All of the annotation packages provided by Bioconductor are simply repackaging of existing data from one or more sources. In this case, the…
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• 0
Thank you for the suggestions Michael. Would you say that after filtering out the low count genes, `rlog(counts, blind = T)` is doing the s…
Comment: Using TPM from tximport of Salmon output for singscore
by
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43k
For clustering generally we recommend `vst()` see the workflow for example. For working with individual samples, I can see how a scaling/t…
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I'd recommend working with a local statistician or someone familiar with linear models in R. I have to reserve my time on the support site …
Votes
clusterProfiler-GO enrichment Error
A: Machine learning in R book
Data preparation and Machine learning on time course RNAseq data
Data preparation and Machine learning on time course RNAseq data
Answer: Use of org.Rn.eg.db with GRCr8 reference genome
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