Showing : CHIPQC • reset
4
votes
13
replies
2.5k
views
BiocParallel error with ChIPQC
BiocManager ChIPQC RSamtools BiocParallel
updated 8 months ago by ★ 5.0k • written 15 months ago by • 0
3
votes
12
replies
3.4k
views
ChIPQC failling when run ChIPQC() over 6 samples
chipqc
updated 6.1 years ago by ▴ 420 • written 8.5 years ago by • 0
5
votes
11
replies
1.7k
views
ChIPQC Error in .Call2 NCList object is too deep
ChIPQC
updated 5.9 years ago by ▴ 420 • written 5.9 years ago by ▴ 10
3
votes
9
replies
2.5k
views
ChIPQC and broadPeak input
chipseq chipqc chip-seq
8.0 years ago lindahove ▴ 10
4
votes
8
replies
2.1k
views
ChIPQC v1.4 fails uninformatively where version 1.2 works fine
chipqc
updated 8.2 years ago by ★ 5.0k • written 8.4 years ago by ▴ 140
4
votes
8
replies
2.0k
views
ChIPQC and/or Diffbind - retrieving normalized read counts for peaks from single sample
DiffBind ChIPQC
7.6 years ago JD ▴ 10
3
votes
7
replies
2.0k
views
ChIPQC for a single sample (disabling facets)
ChipQc chipqc
7.2 years ago Coby Viner ▴ 50
1
vote
7
replies
2.3k
views
ChipQC not loading files
ChipQC diffbind
updated 5.1 years ago by ▴ 420 • written 5.1 years ago by • 0
0
votes
7
replies
1.3k
views
CHIPQC error regarding BiocParallel
CHIPQC Diffbind chipseq rory stark Thomas Carroll
updated 13 months ago by ▴ 40 • written 3.4 years ago by ▴ 10
3
votes
6
replies
1.5k
views
Integer overflow issue with ChIPQC
ChIPQC Rstudio
updated 4.2 years ago by 25k • written 4.2 years ago by ▴ 30
2
votes
6
replies
1.8k
views
ChIPQC: error during annotation compilation
ChIPQC
updated 5.0 years ago by ▴ 420 • written 5.0 years ago by ▴ 10
0
votes
6
replies
1.2k
views
ChiPQC: 1Error in 1:(2 * readlength(object)) : NA/NaN argument
ChiPQC
updated 4.6 years ago by 25k • written 4.6 years ago by • 0
3
votes
6
replies
1.2k
views
ChIPQCreport yields a cryptic error if "Replicate" data is not specified
ChIPQC chipqc
updated 7.0 years ago by ★ 5.0k • written 7.0 years ago by ▴ 50
3
votes
6
replies
13k
views
Error: Faceting variables must have at least one value when plotting with ChIPQC
ChipQC chipqc
updated 11 months ago by • 0 • written 7.1 years ago by ▴ 10
4
votes
6
replies
1.7k
views
ChIPQC GRCh38 usage yields "Unsupported annotation:hg38"
chipqc ChIPQC
updated 7.0 years ago by ▴ 420 • written 7.0 years ago by ▴ 50
2
votes
6
replies
1.5k
views
How to generate custom annotation for rat genome rn6 in ChIPQC
ChIPQC annotation rn6
3.0 years ago • updated 2.8 years ago Frédéric Crémazy • 0
2
votes
5
replies
1.6k
views
Diffbind: dba.plot retrieve variance explained
diffbind chipqc
updated 6.0 years ago by ★ 5.0k • written 6.1 years ago by ▴ 40
2
votes
5
replies
1.2k
views
Error involving ChIPQCreport
ChIPQC
updated 6.5 years ago by ▴ 420 • written 6.5 years ago by • 0
2
votes
5
replies
1.7k
views
ChIPQC gives Error subscript contains out-of-bounds ranges with custom transcript database
chipqc
updated 6.3 years ago by ▴ 420 • written 6.3 years ago by • 0
3
votes
5
replies
2.2k
views
ChIPQC - can't read in bam files
chipqc chipqcreport
5.0 years ago molly_the_minotaur ▴ 30
2
votes
4
replies
2.6k
views
ChIPQC error: "names' attribute [9] must be the same length as the vector [7]"
ChIPQC
updated 2.1 years ago by • 0 • written 4.3 years ago by ▴ 20
3
votes
4
replies
1.2k
views
ChIPQC on samples without peaks and wrong total reads
chipqc
updated 7.0 years ago by ▴ 420 • written 7.0 years ago by ▴ 10
1
vote
4
replies
2.0k
views
ChIPQC: reads counts in bam do not match ones from samtools flagstat
chipqc
updated 8.5 years ago by ▴ 420 • written 8.5 years ago by • 0
0
votes
4
replies
1.6k
views
ChiPQC and paired-end data
ChIPQC ChIPQC
updated 9.2 years ago by ▴ 20 • written 9.2 years ago by ▴ 340
0
votes
4
replies
1.4k
views
Unhelpful Errors Running ChIPQC on Computing Cluster
chipqc chipqcreport
6.1 years ago • updated 6.0 years ago jared.andrews07 ▴ 30
0
votes
4
replies
1.1k
views
ChIPQC plotCoverageHist() and plotCC() not showing inputs
ChIPQC plotCoverageHist plotCC input
6.7 years ago atisou • 0
0
votes
4
replies
1.4k
views
ChIPQCreport Total number of duplicates differs from multiqc/fastqc & RelCC is Inf
ChIPQC ChIPQCreport
updated 6.3 years ago by ▴ 420 • written 6.3 years ago by ▴ 40
0
votes
4
replies
1.9k
views
ChIPQC error: "non-zero exit status"
software error package installation chipqc txdb.hsapiens.ucsc.hg18.knowngene
updated 5.2 years ago by 25k • written 5.2 years ago by • 0
0
votes
4
replies
1.4k
views
ATAC-Seq peaks quality control with ChIPQC package, but getting error
ATAC-Seq ChIPQC
updated 4.6 years ago by 63k • written 4.6 years ago by ▴ 10
1
vote
4
replies
1.3k
views
ChIPQC error: Error in generating sample data
ChIPQC
updated 7.4 years ago by ★ 5.0k • written 7.4 years ago by ▴ 30
5
votes
3
replies
1.8k
views
ChIPQC error: "if (nrow(pv$binding) > 0) { : argument is of length zero"
chipqc
7.2 years ago Danielle Denisko ▴ 30
0
votes
3
replies
1.1k
views
ChIPQC reading more samples that it should
chipqc
6.2 years ago C T ▴ 140
0
votes
3
replies
1.1k
views
Problems with double read counts on ChIPQC
chipqc
updated 7.0 years ago by • 0 • written 7.0 years ago by • 0
1
vote
3
replies
2.3k
views
Downsampling ChIP-seq BAM files with spike in normalization factor before feeding into Diffbind
diffbind chipseq chipqc
updated 2.9 years ago by ★ 5.0k • written 5.6 years ago by ▴ 10
0
votes
3
replies
643
views
ChIPQC: Depths of coverage plot - Figure 1 of the ChIPQC report
ChIPQC
written 2.2 years ago by • 0
1
vote
3
replies
942
views
ChIPQC installation does not force latest DiffBind version
chipqc diffbind chipqcreport
updated 6.3 years ago by ▴ 420 • written 6.3 years ago by ▴ 50
1
vote
3
replies
1.8k
views
ChipQC Error: first error: could not find function "seqlevels<-"
software error chipqc
6.2 years ago tirza.doniger ▴ 20
1
vote
3
replies
912
views
ChIPQC : ChIPQCreport(dba_object) getting error when drawing plotFribl
ChIPQC
6.2 years ago ZheFrench ▴ 40
0
votes
3
replies
1.4k
views
ChIPQC failed on chrM
ChIPQC
updated 6.2 years ago by ▴ 420 • written 6.3 years ago by • 0
0
votes
3
replies
1.0k
views
ChIPQC ERROR with "subscript out of bounds"
chipqc
4.7 years ago Chevy Xu • 0
0
votes
3
replies
1.1k
views
ChiPQC run time error
ChiPQC
updated 6.2 years ago by ▴ 420 • written 6.2 years ago by • 0
1
vote
2
replies
2.5k
views
'reached elapsed time limit' error on ChIPQC
ChIPQC
updated 7.2 years ago by 25k • written 7.2 years ago by • 0
0
votes
2
replies
3.0k
views
Problem loading bamfiles to ChIPQC
ChIPQC
8.7 years ago sergio.espeso-gil • 0
4
votes
2
replies
1.6k
views
Confusing error when running ChIPQC
chipqc chipseq
updated 8.0 years ago by ▴ 420 • written 8.0 years ago by 7.8k
4
votes
2
replies
1.1k
views
ChIPQC : ChIPQCreport(experiment) swap memory overload
ChIPQC ChIPQCreport
updated 6.3 years ago by ▴ 420 • written 6.3 years ago by ▴ 40
1
vote
2
replies
874
views
ChIPQC report missing figures
chipqc software error
updated 6.3 years ago by ▴ 420 • written 6.3 years ago by ▴ 30
0
votes
2
replies
889
views
ChIPQC plots for input samples
chipqc
updated 6.2 years ago by ▴ 420 • written 6.2 years ago by ▴ 140
0
votes
2
replies
815
views
ChipQCreport coverage plot failure?
ChipQC chipqcreport
5.1 years ago tapio.envall • 0
2
votes
2
replies
1.1k
views
ChIPQC gives Bam file has 297 contigs Error: subscript contains out-of-bounds indices
ChIP-seq ChIPQC QC
updated 4.1 years ago by ▴ 20 • written 4.6 years ago by ▴ 10
0
votes
2
replies
1.3k
views
ChipQC 'names' attribute [9] must be the same length as the vector [2]'
chipqc
updated 2.7 years ago by • 0 • written 3.0 years ago by ▴ 40
50 results • Page 1 of 1
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Comment: List of Deprecated Packages for Bioc3.18 by Hervé Pagès 16k
Also the source package is not available [in BioC 3.17](https://bioconductor.org/packages/3.17/CancerInSilico) which means that the package…
Answer: DelayedArray::read_sparse_block by Hervé Pagès 16k
Hi Koki, Sorry again for the slow response. `read_sparse_block()` has been around for years. It's a generic function defined in the *…
Comment: Speeding up of DelayedArray::write_block() by Hervé Pagès 16k
Sorry for missing that one too. When writting blocks to an HDF5 file, the `write_block()` method for HDF5RealizationSink or TENxRealizatio…
Comment: Speeding up of DelayedArray::write_block() by Hervé Pagès 16k
Hi Koki, sorry for not seeing this before. > will SparseArraySeed in DelayedArray be replaced by this new sparse array format? Yes it wil…
Comment: Manual creation of qPCRset does not work by Ed Siefker ▴ 230
Thanks! This works for me.
Votes
Comment: List of Deprecated Packages for Bioc3.18
Answer: Manual creation of qPCRset does not work
Answer: MDS plot edgeR
A: legend with gradient in ComplexHeatmap
Comment: comparing contrasts in edger/lima using makeContrasts function
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