Showing : Chipseq • reset
4
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2
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2.2k
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Confusing error when running ChIPQC
chipqc chipseq
updated 10.2 years ago by ▴ 420 • written 10.2 years ago by ★ 7.9k
0
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0
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Job: Bioinformatics Analyst at University of Cambridge, Cancer Research UK Cambridge Institute
job jobs rnaseq chipseq dnaseq Job
10.2 years ago Rory Stark ★ 5.2k
0
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2
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2.3k
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ChipSeq binning and normalization
chipseq bioconductor
updated 10.2 years ago by ★ 29k • written 10.2 years ago by ▴ 20
3
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9
replies
3.9k
views
ChIPQC and broadPeak input
chipseq chipqc chip-seq
10.2 years ago lindahove ▴ 10
0
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0
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1.2k
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ChIPQC showed errors 'nnodes' must be >= 1
software error bioconductor chipseq chipqc
10.3 years ago wangzhe335 • 0
3
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1
reply
3.9k
views
creating custom genome annotation for the ChIPQC package
ChIPSeq QC ChIPQC
updated 10.3 years ago by ▴ 420 • written 10.3 years ago by ▴ 160
0
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3
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2.0k
views
DiffBind concentration calculation
diffbind chipseq
updated 10.4 years ago by ★ 5.2k • written 10.4 years ago by ▴ 50
8
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0
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4.2k
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Tutorial: Statistics and Computing in Genome Science (CSAMA) Course Material
rnaseq chipseq visualization metagenomics proteomics Tutorial
10.4 years ago Martin Morgan 25k
0
votes
3
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2.3k
views
Problem with rGADEM & MotIV - one matrix consensus after GADEM() and one plot enrichment motif
rgadem motiv chipseq jaspar
updated 10.5 years ago by • 0 • written 10.6 years ago by • 0
8
votes
9
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7.3k
views
ChIPseq-style peak calling for paired-end sequencing?
Chipseq DNAseq ATAC bayespeak narrowpeaks
updated 10.5 years ago by 53k • written 10.5 years ago by ▴ 140
0
votes
7
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2.2k
views
DiffBind fails to derive consensus peaksets
software error chipseq diffbind
updated 10.6 years ago by ▴ 670 • written 10.6 years ago by ▴ 320
2
votes
6
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2.0k
views
DiffBind for Allele-specific binding analysis
diffbind chipseq
updated 10.6 years ago by ★ 5.2k • written 10.6 years ago by ▴ 100
2
votes
6
replies
3.2k
views
ChIPseeker: covplot function: error with some ENCODE data sets
chiPseeker covplot ENCODE ChIpseq
10.6 years ago sarabusquets88 • 0
6
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6
replies
3.9k
views
Score column for DiffBind::dba.peakset
DiffBind chipseq
updated 10.6 years ago by ▴ 670 • written 10.6 years ago by • 0
0
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2
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2.5k
views
Diffbind: Peak score normalization
normalization chipseq diffbind
10.9 years ago medinaale • 0
3
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1
reply
4.7k
views
DiffBind dba.peakset() and consensus peaks
chipseq diffbind
updated 11.0 years ago by ★ 5.2k • written 11.0 years ago by ▴ 120
0
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0
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1.1k
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error with islandDepthPlot in chipseq
chipseq error
11.1 years ago wtimp0 ▴ 10
5
votes
5
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2.6k
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Metagenomic analysis: Aligning ChIPseq data on TSS
metagenomics chipseq biomart shortread convert biomaRt
11.2 years ago patrick.schordert ▴ 30
0
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1
reply
3.5k
views
merge error: 'by.x' and 'by.y' specify different numbers of columns
ChIPSeq biomaRt chipseq ChIPSeq biomaRt chipseq
updated 11.4 years ago by 68k • written 11.4 years ago by ▴ 50
0
votes
10
replies
2.2k
views
DESeq on CCAT identified chipseq peaks
ChIPSeq chipseq DESeq ChIPSeq chipseq DESeq
updated 11.6 years ago by ★ 5.2k • written 11.6 years ago by ★ 13k
0
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0
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1.2k
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narrowpeaks profMatrix rangeval error
ChIPSeq chipseq NarrowPeaks ChIPSeq chipseq NarrowPeaks
11.6 years ago Robert Chase ▴ 10
0
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3
replies
4.4k
views
unknown error in DiffBind package
ChIPSeq chipseq DiffBind ChIPSeq chipseq DiffBind
updated 11.6 years ago by ★ 5.2k • written 11.6 years ago by ★ 13k
0
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0
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4.6k
views
Bioconductor 2.14 is released
BiocViews aCGH SNP Sequencing RNASeq ChIPSeq miRNA Microarray qPCR Metabolomics Coverage
11.6 years ago Dan Tenenbaum ★ 8.2k
0
votes
1
reply
1.9k
views
DiffBind loading Problem
Transcription ChIPSeq chipseq DiffBind Transcription ChIPSeq chipseq DiffBind
11.8 years ago Rory Stark ★ 5.2k
0
votes
1
reply
1.9k
views
IdeogramTrack and bigWig file errors in Gviz
ChIPSeq GO Network rtracklayer CAMERA chipseq Gviz ChIPSeq GO Network rtracklayer Gviz
updated 12.2 years ago by ★ 11k • written 12.2 years ago by ▴ 40
0
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0
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2.7k
views
8. CGHCall problems (Bernard North [guest]) : Bioconductor Digest, Vol 126, Issue 7
aCGH RNASeq ChIPSeq Proteomics Annotation Normalization GO Network Cancer ChipName probe
12.2 years ago Sarah JugurnauthLittle ▴ 20
0
votes
2
replies
1.8k
views
Extracting overlapping gene names from a list of peaks
ChIPSeq chipseq ChIPSeq chipseq
updated 12.3 years ago by ★ 11k • written 12.3 years ago by ▴ 20
0
votes
6
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2.4k
views
IdeogramTrack and bigWig file errors in Gviz
ChIPSeq GO rtracklayer CAMERA chipseq Gviz ChIPSeq GO rtracklayer CAMERA chipseq Gviz
updated 12.6 years ago by ▴ 750 • written 12.6 years ago by ★ 13k
0
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8
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2.6k
views
chip-seq data
ChIPSeq chipseq BayesPeak ChIPSeq chipseq BayesPeak
13.2 years ago John linux-user ▴ 210
0
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0
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1.8k
views
[job] Postdoc position on the bioinfomatics of epigenetic circuits in genome programming and reprogramming at the European Institute of Oncology in M…
RNASeq ChIPSeq Epigenetics Cancer chipseq SANTA RNASeq ChIPSeq Epigenetics Cancer SANTA
14.3 years ago stefano iacus ▴ 430
0
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0
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1.8k
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PhD program in Computational Biology in Milan, Italy
ChIPSeq chipseq ChIPSeq chipseq
14.4 years ago mattia pelizzola ▴ 200
0
votes
7
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2.4k
views
error in bayespeak function
ChIPSeq GO BSgenome BSgenome chipseq BayesPeak ChIPSeq GO BSgenome BSgenome chipseq
updated 14.4 years ago by ▴ 130 • written 14.4 years ago by ▴ 810
0
votes
0
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1.2k
views
ChIPpeakAnno package - filter annotatedPeak for GO enrichment analysis
ChIPSeq Annotation GO biomaRt chipseq ChIPpeakAnno ChIPSeq Annotation GO biomaRt chipseq
14.4 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
911
views
choice of biomaRt feature from annotatePeakInBatch
ChIPSeq Annotation biomaRt chipseq ChIPpeakAnno ChIPSeq Annotation biomaRt chipseq
14.4 years ago Julie Zhu ★ 4.3k
0
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0
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1.2k
views
ChIPpeakAnno -findOverlappingPeaks
ChIPSeq chipseq ChIPpeakAnno ChIPSeq chipseq ChIPpeakAnno
15.2 years ago Julie Zhu ★ 4.3k
0
votes
2
replies
1.5k
views
ChIPpeakAnno - VennDiagram P-value - NaN
ChIPSeq chipseq ChIPpeakAnno ChIPSeq chipseq ChIPpeakAnno
15.3 years ago • updated 15.2 years ago Julie Zhu ★ 4.3k
0
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1
reply
1.4k
views
Involve tag count information in coverage function (IRanges, chipseq package)?
ChIPSeq Coverage chipseq ChIPSeq Coverage chipseq
15.3 years ago Xiaohui Wu ▴ 280
0
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2
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1.2k
views
mypeaklist in ChIPpeakAnno
ChIPSeq chipseq ChIPSeq chipseq
15.3 years ago Julie Zhu ★ 4.3k
0
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0
replies
1.3k
views
ChIPpeakAnno - VennDiagram P-value - NaN
ChIPSeq chipseq ChIPpeakAnno ChIPSeq chipseq ChIPpeakAnno
15.3 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
1.1k
views
ChIPpeakAnno Paper - Example Dataset not found
Transcription ChIPSeq Annotation chipseq genomes Transcription ChIPSeq Annotation chipseq
15.4 years ago Julie Zhu ★ 4.3k
0
votes
2
replies
1.8k
views
chip-seq data analysis
Transcription ChIPSeq Alignment chipseq Transcription ChIPSeq Alignment chipseq
updated 15.7 years ago by 21k • written 15.7 years ago by ▴ 60
0
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0
replies
1.0k
views
ChIPpeakAnnot -names field requried
ChIPSeq chipseq ChIPSeq chipseq
15.9 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
1.1k
views
"islands" and number of reads in the island in package chipseq/ShortRead
ChIPSeq Coverage chipseq ChIPSeq Coverage chipseq
updated 16.0 years ago by ★ 6.5k • written 16.0 years ago by ▴ 40
0
votes
1
reply
1.3k
views
How to install chipseq package
ChIPSeq chipseq ChIPSeq chipseq
updated 16.8 years ago by ★ 1.6k • written 16.8 years ago by ▴ 90
194 results • Page 4 of 4
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Comment: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR by efoss ▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma by Gordon Smyth 53k
Answered here: https://support.bioconductor.org/p/16318/
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0
Thank you very much! will take that into consideration
Comment: Large logFC but somewhat high FDR by JKim • 0
Thank you very much for taking the time to answer the question. I really appreciate your insights and comments.
Votes
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
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