Showing : ChipQC • reset
5
votes
11
replies
989
views
ChIPQC Error in .Call2 NCList object is too deep
ChIPQC
updated 3.9 years ago by ▴ 400 • written 3.9 years ago by ▴ 10
5
votes
3
replies
1.3k
views
ChIPQC error: "if (nrow(pv$binding) > 0) { : argument is of length zero"
chipqc
5.2 years ago Danielle Denisko ▴ 30
4
votes
8
replies
1.6k
views
ChIPQC v1.4 fails uninformatively where version 1.2 works fine
chipqc
updated 6.2 years ago by ★ 4.1k • written 6.4 years ago by ▴ 140
4
votes
8
replies
1.4k
views
ChIPQC and/or Diffbind - retrieving normalized read counts for peaks from single sample
DiffBind ChIPQC
5.6 years ago JD ▴ 10
4
votes
2
replies
1.2k
views
Confusing error when running ChIPQC
chipqc chipseq
updated 6.0 years ago by ▴ 400 • written 6.0 years ago by 7.6k
4
votes
6
replies
1.0k
views
ChIPQC GRCh38 usage yields "Unsupported annotation:hg38"
chipqc ChIPQC
updated 5.0 years ago by ▴ 400 • written 5.0 years ago by ▴ 50
4
votes
2
replies
730
views
ChIPQC : ChIPQCreport(experiment) swap memory overload
ChIPQC ChIPQCreport
updated 4.3 years ago by ▴ 400 • written 4.3 years ago by ▴ 10
3
votes
1
reply
1.8k
views
creating custom genome annotation for the ChIPQC package
ChIPSeq QC ChIPQC
updated 6.1 years ago by ▴ 400 • written 6.1 years ago by ▴ 160
3
votes
7
replies
1.3k
views
ChIPQC for a single sample (disabling facets)
ChipQc chipqc
5.2 years ago Coby Viner ▴ 50
3
votes
12
replies
2.5k
views
ChIPQC failling when run ChIPQC() over 6 samples
chipqc
updated 4.1 years ago by ▴ 400 • written 6.5 years ago by • 0
3
votes
9
replies
1.8k
views
ChIPQC and broadPeak input
chipseq chipqc chip-seq
6.0 years ago lindahove ▴ 10
3
votes
4
replies
744
views
ChIPQC on samples without peaks and wrong total reads
chipqc
updated 5.0 years ago by ▴ 400 • written 5.0 years ago by ▴ 10
3
votes
1
reply
694
views
shiftApply verbosity (in ChIPQC)
ChIPQC s4vectors
updated 5.3 years ago by ▴ 400 • written 5.6 years ago by ▴ 140
3
votes
6
replies
865
views
Integer overflow issue with ChIPQC
ChIPQC Rstudio
updated 2.2 years ago by 25k • written 2.2 years ago by ▴ 30
3
votes
6
replies
819
views
ChIPQCreport yields a cryptic error if "Replicate" data is not specified
ChIPQC chipqc
updated 5.0 years ago by ★ 4.1k • written 5.0 years ago by ▴ 50
2
votes
5
replies
1.1k
views
Diffbind: dba.plot retrieve variance explained
diffbind chipqc
updated 4.0 years ago by ★ 4.1k • written 4.1 years ago by ▴ 10
2
votes
5
replies
790
views
Error involving ChIPQCreport
ChIPQC
updated 4.5 years ago by ▴ 400 • written 4.5 years ago by • 0
2
votes
5
replies
1.2k
views
ChIPQC - can't read in bam files
chipqc chipqcreport
3.0 years ago molly_the_minotaur ▴ 20
2
votes
6
replies
1.1k
views
ChIPQC: error during annotation compilation
ChIPQC
updated 3.0 years ago by ▴ 400 • written 3.0 years ago by ▴ 10
2
votes
5
replies
1.1k
views
ChIPQC gives Error subscript contains out-of-bounds ranges with custom transcript database
chipqc
updated 4.3 years ago by ▴ 400 • written 4.3 years ago by • 0
2
votes
2
replies
637
views
ChIPQC gives Bam file has 297 contigs Error: subscript contains out-of-bounds indices
ChIP-seq ChIPQC QC
updated 2.1 years ago by ▴ 20 • written 2.6 years ago by ▴ 10
2
votes
1
reply
740
views
ChIPQC with GRCh38/hg38 requires manual loading of hg38 annotation
chipqc
updated 4.3 years ago by ▴ 400 • written 4.3 years ago by ▴ 50
2
votes
4
replies
1.3k
views
ChIPQC error: "names' attribute [9] must be the same length as the vector [7]"
ChIPQC
updated 5 weeks ago by • 0 • written 2.3 years ago by ▴ 20
2
votes
6
replies
387
views
How to generate custom annotation for rat genome rn6 in ChIPQC
ChIPQC annotation rn6
12 months ago • updated 9 months ago Frédéric Crémazy • 0
1
vote
3
replies
568
views
ChIPQC installation does not force latest DiffBind version
chipqc diffbind chipqcreport
updated 4.3 years ago by ▴ 400 • written 4.3 years ago by ▴ 50
1
vote
2
replies
576
views
ChIPQC report missing figures
chipqc software error
updated 4.3 years ago by ▴ 400 • written 4.3 years ago by ▴ 20
1
vote
3
replies
552
views
ChIPQC : ChIPQCreport(dba_object) getting error when drawing plotFribl
ChIPQC
4.2 years ago ZheFrench ▴ 10
1
vote
2
replies
2.0k
views
'reached elapsed time limit' error on ChIPQC
ChIPQC
updated 5.2 years ago by 25k • written 5.2 years ago by • 0
1
vote
7
replies
1.5k
views
ChipQC not loading files
ChipQC diffbind
updated 3.1 years ago by ▴ 400 • written 3.1 years ago by • 0
1
vote
4
replies
996
views
ChIPQC error: Error in generating sample data
ChIPQC
updated 5.3 years ago by ★ 4.1k • written 5.3 years ago by ▴ 20
1
vote
4
replies
8.9k
views
Error: Faceting variables must have at least one value when plotting with ChIPQC
ChipQC chipqc
updated 5.0 years ago by ▴ 400 • written 5.1 years ago by ▴ 10
1
vote
3
replies
1.3k
views
Downsampling ChIP-seq BAM files with spike in normalization factor before feeding into Diffbind
diffbind chipseq chipqc
updated 10 months ago by ★ 4.1k • written 3.5 years ago by ▴ 10
1
vote
1
reply
126
views
ChIPQC 'Contigs of interest are not all in Bam file!!' error
ChIPQC
3 months ago Jonah • 0
1
vote
2
replies
153
views
ChIPQC: log2 or log10?
ChIPQC
9 weeks ago • updated 8 weeks ago etiennedanis • 0
1
vote
4
replies
1.4k
views
ChIPQC: reads counts in bam do not match ones from samtools flagstat
chipqc
updated 6.5 years ago by ▴ 400 • written 6.5 years ago by • 0
1
vote
3
replies
1.1k
views
ChipQC Error: first error: could not find function "seqlevels<-"
software error chipqc
4.2 years ago tirza.doniger ▴ 20
0
votes
0
replies
199
views
ChIPQC makes a neverending loop while using all chromosomes
chipqc chipseq ChIPQC
2.0 years ago laura.mannarino ▴ 20
0
votes
1
reply
192
views
ChIPQC produces empty cross correlation plot
chipqc cross correlation
20 months ago nikhil.ashok.joshi • 0
0
votes
0
replies
144
views
Missing some plots and columns in my ChIPQC report
ChIPQC BioConductor
19 months ago mudithekanayake • 0
0
votes
0
replies
156
views
ChIPQC cross-coverage plot
chipqc chip-seq
17 months ago tuteja.reetu • 0
0
votes
1
reply
239
views
CHIPQC error regarding BiocParallel
CHIPQC Diffbind chipseq rory stark Thomas Carroll
updated 17 months ago by 25k • written 17 months ago by ▴ 10
0
votes
2
replies
362
views
ChipQC 'names' attribute [9] must be the same length as the vector [2]'
chipqc
updated 7 months ago by • 0 • written 11 months ago by ▴ 10
0
votes
0
replies
353
views
ChIPQC BiocParallel problems and how to select the "PeakCaller" for broad histone modification
ChIPQC
11 months ago lida • 0
0
votes
2
replies
525
views
Error while running ChIPQC
ChIPQC
updated 10 months ago by 3.4k • written 10 months ago by • 0
0
votes
1
reply
101
views
ChIPQC: Depths of coverage plot - Figure 1 of the ChIPQC report
ChIPQC
8 weeks ago • updated 2 days ago etiennedanis • 0
0
votes
1
reply
138
views
ChIPQC error in previously working code (BAM association error)
chipqc
updated 5 months ago by • 0 • written 5 months ago by ▴ 50
0
votes
0
replies
63
views
ChIPQC: Theme
ChIPQC
8 weeks ago etiennedanis • 0
0
votes
0
replies
385
views
ChIPQC Error in names(res) <- nms
chipqc
3.1 years ago gavrielmatt • 0
0
votes
1
reply
385
views
ChIPQC error: NCList object is too deep
ChIPQC
updated 2.6 years ago by ▴ 400 • written 2.7 years ago by • 0
0
votes
4
replies
1.1k
views
ChiPQC and paired-end data
ChIPQC ChIPQC
updated 7.1 years ago by ▴ 20 • written 7.2 years ago by ▴ 340
50 results • Page 1 of 1
Recent ...
Replies
Comment: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi by Gordon Smyth 43k
You need to start by doing an ordinary paired analysis.
Comment: Recalculated abundance data output table with DEseq2 by Michael Love 34k
Yes, DESeq() then results(). When you print the table it will say MLE. No we don’t have a function to do that.
Comment: Recalculated abundance data output table with DEseq2 by michael.morash • 0
Thanks for getting back to me so quickly. The final comparison we are looking to report are the effects of filtering out low count genes us…
Comment: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi by Field -Ye • 0
Hi Professor Smyth, Thank you for pointing me to your previous publication. I went through the verbal part and found you did pursue the DG…
Comment: Macbook M1 install genefilter failed by Michael Love 34k
Try [n] to updating packages, and "no" to install from source.
Votes
Answer: Degust: what normalization method does it use
Answer: ylim and xlim in Enhanced Volcano
Answer: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi
Error in .rowNamesDF<-(x, value = value) :duplicate row.names are not allowed DESeq2
Comment: How to build a GRangesList where each GRanges element is a CDS coordinate of gen
Awards • All
Scholar to Rory Stark ★ 4.1k
Scholar to jbnrodriguez • 0
Scholar to Yang Liao ▴ 260
Scholar to James W. MacDonald 58k
Teacher to Michael Love 34k
Locations • All
EMBL Heidelberg / de.NBI, 3 minutes ago
United States, 20 minutes ago
United States, 21 minutes ago
Australia, 25 minutes ago
WEHI, Melbourne, Australia, 33 minutes ago
Traffic: 245 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6