Showing : ChipSeq • reset
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Chip Seq Analysis of RNA Polymerase 2
ChIPseeker ChIPSeqData ChIPSeq Bioconductor
written 19 days ago by • 0
0
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1
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3.3k
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Job: Postdoctoral Research Position in Cancer Genomics at Dana-Farber Cancer Institute/Harvard University
cancer computational biology rnaseq chipseq Job
written 11.3 years ago by • 0
0
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2
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632
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Problem in Chip-seq data analysis using MACS3
chipseq MACSdata
updated 8 months ago by ★ 5.0k • written 8 months ago by • 0
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0
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1.2k
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Diffbind Analysis gives error during profile plotting stage. Error in value[[3L]](cond) : profileplyr error: Error: BiocParallel errors 1 remote…
chipseq profileplyr DiffBind
9 months ago Muhammad • 0
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0
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453
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I want my overlapping peaks to stop merging by default doing read counting (using DiffBind in R-studio)
peakoverlap mergingpeaks ChIPseq DiffBind
10 months ago atlanta • 0
0
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0
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429
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News: Introduction to Epigenomics data analysis with R and Bioconductor course (online) - 14th-18th April
chipseq MNaseSeq ATACSeq
10 months ago info ▴ 10
1
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8
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2.9k
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[ChIP-seq] DESeq2 on counts matrix from union set of called peaks
csaw ChIPseq DESeq2 DiffBind
11 months ago • updated 10 months ago Luca • 0
1
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3
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1.3k
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Csaw normalization strategies - general inquiry
ChIPSeq csaw
updated 13 months ago by • 0 • written 13 months ago by • 0
6
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5
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2.4k
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MEDIPS for chIP-Seq
ChIPSeq
written 3.6 years ago by ▴ 30
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412
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ChIP peaks comparison
ChIPSeqData genomes ChIPSeq
15 months ago user_bioinfo • 0
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0
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583
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Trying to understand basic DiffBind usage
ChIPSeq DiffBind
17 months ago Alejandro • 0
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0
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907
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Blacklist regions on DBA object (diffbind)
DiffBind chipseq
20 months ago gamma.jian ▴ 10
0
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0
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901
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DiffBind: no peaks in DBA object
DiffBind macs2 chipseq
22 months ago yvonneh • 0
0
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1
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652
views
what is the sampleFiles
chipseq
updated 22 months ago by 68k • written 22 months ago by • 0
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916
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Best method for annotating distal peaks
ChIPSeq annotation ChIPpeakAnno
2.0 years ago nilanjanamani88 • 0
1
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3
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1.3k
views
Big differences between biological replicates makes DESeq2 result 0
chipseq DifferentialMethylation DESeq2
updated 2.1 years ago by 43k • written 2.1 years ago by • 0
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672
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Parameter bSubControl with no effect in DiffBind dba.count?
bSubControl ChIPSeq DiffBind
2.1 years ago frueher • 0
0
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0
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1.1k
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Calculation of ChIP-seq normalization factors with non-conventional spike-in assumptions
csaw ChIPseq DiffBind
2.3 years ago jared.andrews07 ▴ 30
1
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1
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1.4k
views
DiffBind - how to prep the sample matrix when multiple bam files are used by MACS2's -t and -c param?
DiffBind chipseq
updated 2.4 years ago by 68k • written 2.4 years ago by • 0
0
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858
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Why there are two pfms in the result of oligoSummary function of ChIPpeakAnno package?
ChIPpeakAnno ChIPSeq MotifDiscovery
2.4 years ago franciscrick41 • 0
2
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14
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2.8k
views
ChIPpeakAnno: S.lycopersicum annotation missing
ChIPpeakAnno ChIPSeq
updated 2.5 years ago by 68k • written 2.5 years ago by ▴ 10
0
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5
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7.5k
views
diffbind
DiffBind chipseq
updated 2.6 years ago by ★ 5.3k • written 2.6 years ago by • 0
1
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4
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2.5k
views
DiffBind - Retrieving the differentially bound sites - HOW to calculate fold-change
ChIPSeq DiffBind
updated 2.7 years ago by ★ 5.3k • written 2.8 years ago by • 0
0
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2
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1.4k
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annotate peaks using a custom genome
ChIPSeq annotate ChIPpeakAnno
updated 2.8 years ago by ▴ 70 • written 2.8 years ago by ▴ 140
5
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8
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2.0k
views
Help with error install csaw
ChIPSeq ATACSeq
written 2.9 years ago by ▴ 20
0
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2
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2.3k
views
DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2?
DESeq2 ChIPSeq DiffBind edgeR HistoneModification
2.9 years ago Giulia • 0
0
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0
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877
views
DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2?
DESeq2 ChIPSeq DiffBind edgeR HistoneModification
2.9 years ago Giulia • 0
1
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2
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2.0k
views
how i can get the name of genes in pathway?
chipseq ChIPseeker
3.0 years ago chavaleab • 0
1
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3
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1.6k
views
Only getting 10 peaks from mac2 callpeak
ChIPSeq
3.0 years ago stacy.genovese • 0
1
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4
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2.9k
views
How to search a .narrowPeak file for a list of specific genes using GenomicRanges package
ChIPSeq PeakDetection
3.1 years ago stacy.genovese • 0
0
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2
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1.6k
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New to ChipSeq getting 0 peaks using dba()
ChipSeq ChIPSeqData chipseqDB
3.2 years ago stacy.genovese • 0
0
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1
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1.4k
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DiffBind question _ SampleSheet / Venn diagram issue
chipseq DiffBind
updated 3.4 years ago by ★ 5.3k • written 3.4 years ago by • 0
0
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7
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3.0k
views
CHIPQC error regarding BiocParallel
CHIPQC Diffbind chipseq rory stark Thomas Carroll
updated 3.5 years ago by ▴ 40 • written 5.8 years ago by ▴ 10
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1
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1.5k
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Job: 'Omics data analyst for HPCBio, University of Illinois
Metagenomics GenomicVariation Genomics RNASeq ChIPSeq
3.6 years ago Jenny Drnevich ★ 2.0k
0
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0
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1.3k
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intron coordination and annotation
ChIPSeq
updated 3.6 years ago by ★ 5.0k • written 3.6 years ago by • 0
0
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0
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1.4k
views
Job: Bioinformatics Research Scientist- Epigenetics Group
HiC Epigenetics HiCHIP ChIPSeq
3.7 years ago xubeisi • 0
0
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1
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1.2k
views
AssignChromosomeRegion not working in Rstudio 4.2
ChIPpeakAnno ChIPSeq
updated 3.8 years ago by ★ 1.4k • written 3.8 years ago by • 0
0
votes
3
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1.8k
views
DiffBind on static peak set for all samples
ChIPSeq DiffBind
updated 3.8 years ago by ★ 5.3k • written 3.8 years ago by • 0
0
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0
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1.2k
views
Can we get an Average Profile of ChIP peaks binding to Transcription "START and STOP site" both in a single plot?
ChIPSeq ChIPseeker
3.8 years ago Swadha • 0
0
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3
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1.8k
views
Input peak set for DiffBind should be all peaks or FDR filtered?
ChIPSeq DiffBind
written 4.0 years ago by • 0
1
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2
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2.3k
views
Normalize ChIP-seq samples with different signal-to-noise ratio
csaw edger tmm chipseq
updated 3.9 years ago by ★ 5.3k • written 3.9 years ago by • 0
1
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1
reply
1.7k
views
DiffBind scoreCol value question
DiffBind ChIPSeq chipseq
updated 4.2 years ago by ★ 5.3k • written 4.2 years ago by • 0
0
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0
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1.2k
views
findOverlapsOfPeaks - peaklist of connectedPeaks="min:
findOverlapsOfPeaks ChIPpeakAnno chipseq
4.2 years ago Nadav • 0
0
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0
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1.4k
views
DiffBind spike-in normalisation with varying amounts of spike-in chromatin
DiffBind ChIPSeq Normalization SpikeIn
4.4 years ago Drew • 0
0
votes
6
replies
3.3k
views
cel files with affy library
ChIPSeq
updated 4.5 years ago by • 0 • written 4.6 years ago by • 0
3
votes
12
replies
5.4k
views
Is it possible to change how DiffBind merge peaks?
DiffBind ChIPseq
updated 4.5 years ago by ★ 5.3k • written 6.4 years ago by ▴ 20
0
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2
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2.0k
views
Using both spike in and TMM normalizations in ChIP-seq samples
ChIPSeq SpikeIn edgeR Normalization
4.6 years ago • updated 4.5 years ago maria.soler • 0
2
votes
3
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2.5k
views
An error using Diffbind plotprofile
ChIPSeq profileplyr DiffBind
updated 4.5 years ago by ▴ 20 • written 4.6 years ago by • 0
5
votes
8
replies
3.5k
views
how to construct a DBA object from count matrix
ChIPSeq ATACSeq differentially_occupied DiffBind
updated 3.7 years ago by ▴ 20 • written 4.6 years ago by ▴ 30
0
votes
1
reply
2.9k
views
DiffBind Normalisation between Narrow/Broad Peaks from different peak callers
ChIPSeq SICER2 DiffBind MACS2 offtopic
updated 4.8 years ago by 68k • written 4.8 years ago by ▴ 290
195 results • Page 1 of 4
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Comment: Question on processing compound protein groups in limpa by JKim • 0
Many thanks. I appreciate your advice.
Answer: Question on processing compound protein groups in limpa by Gordon Smyth 53k
Different people have different ways of dealing with compound protein groups. You could just leave them in the analysis, in which case limp…
Answer: Correct usage of limpa for protein input by Gordon Smyth 53k
limpa can work on protein-level quantifications, but they must be intensity-based and must be on the log scale. From what I read (<https://…
Comment: A problem occurs when running the monocle2 by a2a2hset32aa • 0
Troubleshooting monocle2 errors in R 4.5.1 often points to package incompatibilities, particularly with newer versions of igraph. For resea…
Comment: Deadline Extended: EuroBioC2026 Call for Abstracts by a2a2hset32aa • 0
Attending EuroBioC2026 is an excellent way for researchers to explore the intersection of technology and biology. For those seeking high qu…
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Answer: Question on processing compound protein groups in limpa
Answer: Correct usage of limpa for protein input
Answer: Correct usage of limpa for protein input
Answer: Correct usage of limpa for protein input
A: Interpretaion of dendrogram height in WGCNA?
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