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ChipQC
•
reset
0
votes
1
reply
172
views
Unevaluated error in ChIPQC combined with BiocParallel
BiocParallel
ChIPQC
written 5 weeks ago by
Young Boqin
• 0
2
votes
1
reply
1.9k
views
DiffBind: Error in if (res$config$bCorPlot) { : the condition has length > 1
DiffBind
ChIPQC
updated 2.2 years ago by
Rory Stark
★ 5.2k • written 2.2 years ago by
ryleehackley
• 0
4
votes
13
replies
4.4k
views
BiocParallel error with ChIPQC
BiocManager
ChIPQC
RSamtools
BiocParallel
updated 22 months ago by
Rory Stark
★ 5.2k • written 2.4 years ago by
etiennedanis
• 0
0
votes
7
replies
2.2k
views
CHIPQC error regarding BiocParallel
CHIPQC
Diffbind
chipseq
rory stark
Thomas Carroll
updated 2.3 years ago by
arisarkar88
▴ 40 • written 4.6 years ago by
bioinfouser2
▴ 10
1
vote
2
replies
1.2k
views
Could it be possible to get an older version of ChIPQC?
ChIPQC
ChIP-seq
DiffBind
Rory_Stark
2.3 years ago
etiennedanis
• 0
0
votes
3
replies
1.1k
views
ChIPQC: Depths of coverage plot - Figure 1 of the ChIPQC report
ChIPQC
written 3.3 years ago by
etiennedanis
• 0
0
votes
1
reply
1.1k
views
saving png images and X11
ChipQC
updated 2.7 years ago by
ATpoint
★ 4.5k • written 2.7 years ago by
Bogdan
▴ 670
0
votes
0
replies
957
views
Generate a custom annotation for ChIPQC
ChIPQC
updated 2.7 years ago by
James W. MacDonald
67k • written 2.7 years ago by
channie1001
• 0
0
votes
2
replies
1.1k
views
ChIP-seq or CUT&RUN enrichment
ChIPQC
ChIPpeakAnno
2.8 years ago
Bogdan
▴ 670
3
votes
6
replies
15k
views
Error: Faceting variables must have at least one value when plotting with ChIPQC
ChipQC
chipqc
updated 2.1 years ago by
Xue
• 0 • written 8.2 years ago by
thekatybrown
▴ 10
0
votes
0
replies
641
views
ChIPQC: Theme
ChIPQC
3.3 years ago
etiennedanis
• 0
1
vote
2
replies
970
views
ChIPQC: log2 or log10?
ChIPQC
3.3 years ago
etiennedanis
• 0
3
votes
1
reply
1.1k
views
ChIPQC 'Contigs of interest are not all in Bam file!!' error
ChIPQC
3.5 years ago
Jonah
▴ 20
0
votes
2
replies
1.3k
views
ChIPQC error in previously working code (BAM association error)
chipqc
updated 23 months ago by
stacy.genovese
• 0 • written 3.6 years ago by
Coby Viner
▴ 50
2
votes
3
replies
2.0k
views
ChipQC 'names' attribute [9] must be the same length as the vector [2]'
chipqc
updated 6 months ago by
bandconductor
• 0 • written 4.1 years ago by
ZheFrench
▴ 60
2
votes
7
replies
2.2k
views
How to generate custom annotation for rat genome rn6 in ChIPQC
ChIPQC
annotation
rn6
updated 10 months ago by
Raghavaram
• 0 • written 4.2 years ago by
Frédéric Crémazy
• 0
0
votes
2
replies
1.6k
views
Error while running ChIPQC
ChIPQC
updated 4.0 years ago by
Kevin Blighe
★ 4.0k • written 4.0 years ago by
zebasilio
• 0
1
vote
3
replies
3.2k
views
Downsampling ChIP-seq BAM files with spike in normalization factor before feeding into Diffbind
diffbind
chipseq
chipqc
updated 4.0 years ago by
Rory Stark
★ 5.2k • written 6.7 years ago by
bioinfouser2
▴ 10
0
votes
0
replies
1.4k
views
ChIPQC BiocParallel problems and how to select the "PeakCaller" for broad histone modification
ChIPQC
4.1 years ago
lida
• 0
0
votes
0
replies
854
views
ChIPQC cross-coverage plot
chipqc
chip-seq
4.6 years ago
tuteja.reetu
• 0
0
votes
0
replies
733
views
Missing some plots and columns in my ChIPQC report
ChIPQC
BioConductor
4.7 years ago
mudithekanayake
• 0
0
votes
1
reply
907
views
ChIPQC produces empty cross correlation plot
chipqc
cross correlation
4.8 years ago
nikhil.ashok.joshi
• 0
0
votes
1
reply
1.0k
views
ChIPQC: Error in summary.factor
ChIPQC
updated 5.0 years ago by
bl.lagerwaard
• 0 • written 5.1 years ago by
mahmoud.fassad.14
• 0
0
votes
0
replies
847
views
ChIPQC makes a neverending loop while using all chromosomes
chipqc
chipseq
ChIPQC
5.2 years ago
laura.mannarino
▴ 20
1
vote
1
reply
1.3k
views
ChIPQC: issues with report generation and QC metrics
ChIPQC
software error
5.2 years ago
ryleehackley
• 0
2
votes
2
replies
1.5k
views
ChIPQC gives Bam file has 297 contigs Error: subscript contains out-of-bounds indices
ChIP-seq
ChIPQC
QC
updated 5.3 years ago by
zhenfeng.liu1
▴ 20 • written 5.7 years ago by
star
▴ 10
3
votes
6
replies
2.0k
views
Integer overflow issue with ChIPQC
ChIPQC
Rstudio
updated 5.3 years ago by
Martin Morgan
25k • written 5.3 years ago by
Nitesh Kumar Singh
▴ 30
0
votes
1
reply
1.6k
views
ChIPQC BiocParallel errors
ChIPQC
ChIPQC error
BiocParallel
5.4 years ago
minervajunjun
• 0
2
votes
4
replies
3.4k
views
ChIPQC error: "names' attribute [9] must be the same length as the vector [7]"
ChIPQC
updated 3.3 years ago by
Yue
• 0 • written 5.4 years ago by
analeigh.gui
▴ 20
0
votes
1
reply
1.3k
views
Unable to annotate in ChIPQC using yeast genome
ChIPQC
GenomicRanges
ChIPpeakAnno
updated 3.5 years ago by
Zender
• 0 • written 5.5 years ago by
bertb
• 0
0
votes
1
reply
979
views
ChIPQC error: NCList object is too deep
ChIPQC
updated 5.8 years ago by
Thomas Carroll
▴ 420 • written 5.8 years ago by
nikhil.ashok.joshi
• 0
0
votes
4
replies
2.0k
views
ATAC-Seq peaks quality control with ChIPQC package, but getting error
ATAC-Seq
ChIPQC
updated 5.8 years ago by
James W. MacDonald
67k • written 5.8 years ago by
Subinoy Biswas
▴ 10
0
votes
6
replies
1.7k
views
ChiPQC: 1Error in 1:(2 * readlength(object)) : NA/NaN argument
ChiPQC
updated 5.8 years ago by
Martin Morgan
25k • written 5.8 years ago by
zebasilio
• 0
0
votes
3
replies
1.4k
views
ChIPQC ERROR with "subscript out of bounds"
chipqc
5.9 years ago • updated 5.8 years ago
Chevy Xu
• 0
2
votes
6
replies
2.5k
views
ChIPQC: error during annotation compilation
ChIPQC
updated 6.2 years ago by
Thomas Carroll
▴ 420 • written 6.2 years ago by
hdingwall
▴ 10
3
votes
5
replies
2.8k
views
ChIPQC - can't read in bam files
chipqc
chipqcreport
6.2 years ago
molly_the_minotaur
▴ 30
0
votes
0
replies
893
views
ChIPQC Error in names(res) <- nms
chipqc
6.2 years ago
gavrielmatt
▴ 30
1
vote
7
replies
3.1k
views
ChipQC not loading files
ChipQC
diffbind
updated 6.2 years ago by
Thomas Carroll
▴ 420 • written 6.2 years ago by
annap
• 0
0
votes
2
replies
1.1k
views
ChipQCreport coverage plot failure?
ChipQC
chipqcreport
6.3 years ago
tapio.envall
• 0
0
votes
4
replies
2.5k
views
ChIPQC error: "non-zero exit status"
software error
package installation
chipqc
txdb.hsapiens.ucsc.hg18.knowngene
updated 6.3 years ago by
Martin Morgan
25k • written 6.3 years ago by
hallie.s
• 0
0
votes
0
replies
1.3k
views
ChIPQC : ChIPQCreport : Error: Dimensions exceed 50 inches when saving plot with large sampleSheet
chipqc
6.7 years ago
ZheFrench
▴ 60
0
votes
0
replies
1.1k
views
ChIPQC 0 unmapped does not agree with the samtool generated stats
ChIPQC
6.9 years ago
ew152
• 0
0
votes
0
replies
1.3k
views
ChIPQC: Error in names(res) <- nms
ChIPQC
chip-seq
7.0 years ago
nbkingsley
• 0
5
votes
11
replies
2.4k
views
ChIPQC Error in .Call2 NCList object is too deep
ChIPQC
updated 7.0 years ago by
Thomas Carroll
▴ 420 • written 7.0 years ago by
Victor Goitea
▴ 10
0
votes
1
reply
1.7k
views
Can ChIPQC analyze mandarin duck ChIP-Seq data?
ChIPQC
updated 7.1 years ago by
Thomas Carroll
▴ 420 • written 7.2 years ago by
Gary
▴ 20
0
votes
4
replies
1.8k
views
Unhelpful Errors Running ChIPQC on Computing Cluster
chipqc
chipqcreport
7.2 years ago
jared.andrews07
▴ 30
0
votes
0
replies
980
views
ChIPQC stops at chr3 for calculating shift
chipqc
7.2 years ago
psudyant
• 0
2
votes
5
replies
2.1k
views
Diffbind: dba.plot retrieve variance explained
diffbind
chipqc
updated 7.2 years ago by
Rory Stark
★ 5.2k • written 7.2 years ago by
ZheFrench
▴ 60
3
votes
12
replies
4.2k
views
ChIPQC failling when run ChIPQC() over 6 samples
chipqc
updated 7.2 years ago by
Thomas Carroll
▴ 420 • written 9.7 years ago by
atisou
• 0
0
votes
3
replies
1.5k
views
ChiPQC run time error
ChiPQC
updated 7.3 years ago by
Thomas Carroll
▴ 420 • written 7.3 years ago by
NANADAWONG
• 0
50 results • Page
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Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta
by
daniela.gutierrezandrade
• 0
Hello, I am running into a similar issue. After setting the design, at the beginning of the analysis I filter rows with low counts. d…
Comment: Limma- Print-tip loess normalisation-printer layout information does not match M
by
dseauer
• 0
Thank you so much for all of your help! I really appreciate it!
Comment: Limma- Print-tip loess normalisation-printer layout information does not match M
by
Gordon Smyth
51k
Thanks for extra info, but be careful that the Bioconductor support site requires code to be an markdown format. Copying code with prompts …
Comment: Limma- Print-tip loess normalisation-printer layout information does not match M
by
dseauer
• 0
Thank you so much for your reply! I am sincerely sorry- of course I do not have multiple GAL files- just one- I meant gpr files! I am so so…
Comment: Is it possible to parallelise saveHDF5SummarizedExperiment
by
Stefano Mangiola
▴ 20
Thansk Herve', I will try. For reference this is the parallelization implementation of zellkonverter, to save anndata from SCE https://gi…
Votes
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
biomaRt rnorvegicus_gene_ensembl not available anymore
A: Does edgeR need to specify reference group?
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