Showing : ChipSeq • reset
0
votes
1
reply
3.3k
views
Job: Postdoctoral Research Position in Cancer Genomics at Dana-Farber Cancer Institute/Harvard University
cancer computational biology rnaseq chipseq Job
written 11.2 years ago by • 0
0
votes
2
replies
609
views
Problem in Chip-seq data analysis using MACS3
chipseq MACSdata
updated 7 months ago by ★ 5.0k • written 7 months ago by • 0
0
votes
0
replies
1.1k
views
Diffbind Analysis gives error during profile plotting stage. Error in value[[3L]](cond) : profileplyr error: Error: BiocParallel errors 1 remote…
chipseq profileplyr DiffBind
8 months ago Muhammad • 0
0
votes
0
replies
420
views
I want my overlapping peaks to stop merging by default doing read counting (using DiffBind in R-studio)
peakoverlap mergingpeaks ChIPseq DiffBind
9 months ago atlanta • 0
0
votes
0
replies
408
views
News: Introduction to Epigenomics data analysis with R and Bioconductor course (online) - 14th-18th April
chipseq MNaseSeq ATACSeq
10 months ago info ▴ 10
1
vote
8
replies
2.9k
views
[ChIP-seq] DESeq2 on counts matrix from union set of called peaks
csaw ChIPseq DESeq2 DiffBind
10 months ago • updated 9 months ago Luca • 0
1
vote
3
replies
1.3k
views
Csaw normalization strategies - general inquiry
ChIPSeq csaw
updated 12 months ago by • 0 • written 12 months ago by • 0
6
votes
5
replies
2.4k
views
MEDIPS for chIP-Seq
ChIPSeq
written 3.5 years ago by ▴ 30
0
votes
0
replies
397
views
ChIP peaks comparison
ChIPSeqData genomes ChIPSeq
15 months ago user_bioinfo • 0
0
votes
0
replies
564
views
Trying to understand basic DiffBind usage
ChIPSeq DiffBind
16 months ago Alejandro • 0
0
votes
0
replies
872
views
Blacklist regions on DBA object (diffbind)
DiffBind chipseq
19 months ago gamma.jian ▴ 10
0
votes
0
replies
878
views
DiffBind: no peaks in DBA object
DiffBind macs2 chipseq
21 months ago yvonneh • 0
0
votes
1
reply
631
views
what is the sampleFiles
chipseq
updated 21 months ago by 68k • written 21 months ago by • 0
0
votes
0
replies
894
views
Best method for annotating distal peaks
ChIPSeq annotation ChIPpeakAnno
24 months ago nilanjanamani88 • 0
1
vote
3
replies
1.2k
views
Big differences between biological replicates makes DESeq2 result 0
chipseq DifferentialMethylation DESeq2
updated 2.0 years ago by 43k • written 2.0 years ago by • 0
0
votes
0
replies
657
views
Parameter bSubControl with no effect in DiffBind dba.count?
bSubControl ChIPSeq DiffBind
2.0 years ago frueher • 0
0
votes
0
replies
1.1k
views
Calculation of ChIP-seq normalization factors with non-conventional spike-in assumptions
csaw ChIPseq DiffBind
2.2 years ago jared.andrews07 ▴ 30
1
vote
1
reply
1.3k
views
DiffBind - how to prep the sample matrix when multiple bam files are used by MACS2's -t and -c param?
DiffBind chipseq
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
0
votes
0
replies
849
views
Why there are two pfms in the result of oligoSummary function of ChIPpeakAnno package?
ChIPpeakAnno ChIPSeq MotifDiscovery
2.4 years ago franciscrick41 • 0
2
votes
14
replies
2.7k
views
ChIPpeakAnno: S.lycopersicum annotation missing
ChIPpeakAnno ChIPSeq
updated 2.4 years ago by 68k • written 2.4 years ago by ▴ 10
0
votes
5
replies
7.5k
views
diffbind
DiffBind chipseq
updated 2.5 years ago by ★ 5.2k • written 2.5 years ago by • 0
1
vote
4
replies
2.4k
views
DiffBind - Retrieving the differentially bound sites - HOW to calculate fold-change
ChIPSeq DiffBind
updated 2.7 years ago by ★ 5.2k • written 2.7 years ago by • 0
0
votes
2
replies
1.4k
views
annotate peaks using a custom genome
ChIPSeq annotate ChIPpeakAnno
updated 2.8 years ago by ▴ 70 • written 2.8 years ago by ▴ 140
5
votes
8
replies
2.0k
views
Help with error install csaw
ChIPSeq ATACSeq
written 2.9 years ago by ▴ 20
0
votes
2
replies
2.2k
views
DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2?
DESeq2 ChIPSeq DiffBind edgeR HistoneModification
2.9 years ago Giulia • 0
0
votes
0
replies
867
views
DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2?
DESeq2 ChIPSeq DiffBind edgeR HistoneModification
2.9 years ago Giulia • 0
1
vote
2
replies
1.9k
views
how i can get the name of genes in pathway?
chipseq ChIPseeker
2.9 years ago chavaleab • 0
1
vote
3
replies
1.5k
views
Only getting 10 peaks from mac2 callpeak
ChIPSeq
2.9 years ago stacy.genovese • 0
1
vote
4
replies
2.7k
views
How to search a .narrowPeak file for a list of specific genes using GenomicRanges package
ChIPSeq PeakDetection
3.1 years ago • updated 3.0 years ago stacy.genovese • 0
0
votes
2
replies
1.6k
views
New to ChipSeq getting 0 peaks using dba()
ChipSeq ChIPSeqData chipseqDB
3.2 years ago stacy.genovese • 0
0
votes
1
reply
1.4k
views
DiffBind question _ SampleSheet / Venn diagram issue
chipseq DiffBind
updated 3.3 years ago by ★ 5.2k • written 3.3 years ago by • 0
0
votes
7
replies
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
0
votes
1
reply
1.5k
views
Job: 'Omics data analyst for HPCBio, University of Illinois
Metagenomics GenomicVariation Genomics RNASeq ChIPSeq
3.5 years ago Jenny Drnevich ★ 2.0k
0
votes
0
replies
1.3k
views
intron coordination and annotation
ChIPSeq
updated 3.5 years ago by ★ 5.0k • written 3.5 years ago by • 0
0
votes
0
replies
1.4k
views
Job: Bioinformatics Research Scientist- Epigenetics Group
HiC Epigenetics HiCHIP ChIPSeq
3.6 years ago xubeisi • 0
0
votes
1
reply
1.2k
views
AssignChromosomeRegion not working in Rstudio 4.2
ChIPpeakAnno ChIPSeq
updated 3.7 years ago by ★ 1.3k • written 3.7 years ago by • 0
0
votes
3
replies
1.8k
views
DiffBind on static peak set for all samples
ChIPSeq DiffBind
updated 3.7 years ago by ★ 5.2k • written 3.7 years ago by • 0
0
votes
0
replies
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
votes
3
replies
1.8k
views
Input peak set for DiffBind should be all peaks or FDR filtered?
ChIPSeq DiffBind
written 3.9 years ago by • 0
1
vote
2
replies
2.3k
views
Normalize ChIP-seq samples with different signal-to-noise ratio
csaw edger tmm chipseq
updated 3.9 years ago by ★ 5.2k • written 3.9 years ago by • 0
1
vote
1
reply
1.7k
views
DiffBind scoreCol value question
DiffBind ChIPSeq chipseq
updated 4.1 years ago by ★ 5.2k • written 4.1 years ago by • 0
0
votes
0
replies
1.2k
views
findOverlapsOfPeaks - peaklist of connectedPeaks="min:
findOverlapsOfPeaks ChIPpeakAnno chipseq
4.2 years ago Nadav • 0
0
votes
0
replies
1.4k
views
DiffBind spike-in normalisation with varying amounts of spike-in chromatin
DiffBind ChIPSeq Normalization SpikeIn
4.3 years ago Drew • 0
0
votes
6
replies
3.2k
views
cel files with affy library
ChIPSeq
updated 4.5 years ago by • 0 • written 4.5 years ago by • 0
3
votes
12
replies
5.3k
views
Is it possible to change how DiffBind merge peaks?
DiffBind ChIPseq
updated 4.5 years ago by ★ 5.2k • written 6.4 years ago by ▴ 20
0
votes
2
replies
2.0k
views
Using both spike in and TMM normalizations in ChIP-seq samples
ChIPSeq SpikeIn edgeR Normalization
4.5 years ago maria.soler • 0
2
votes
3
replies
2.5k
views
An error using Diffbind plotprofile
ChIPSeq profileplyr DiffBind
updated 4.4 years ago by ▴ 20 • written 4.5 years ago by • 0
5
votes
8
replies
3.4k
views
how to construct a DBA object from count matrix
ChIPSeq ATACSeq differentially_occupied DiffBind
updated 3.6 years ago by ▴ 20 • written 4.5 years ago by ▴ 30
0
votes
1
reply
2.8k
views
DiffBind Normalisation between Narrow/Broad Peaks from different peak callers
ChIPSeq SICER2 DiffBind MACS2 offtopic
updated 4.7 years ago by 68k • written 4.7 years ago by ▴ 290
2
votes
5
replies
5.8k
views
News: New in DiffBind 3.2: dba.plotProfile() - Peak profiles and profile heatmaps
profileplyr ATACSeq DiffBind ComplexHeatmap ChIPSeq
updated 3.1 years ago by • 0 • written 4.7 years ago by ★ 5.2k
194 results • Page 1 of 4
Recent ...
Replies
Comment: msmsTests, inconsistent sign between lFC.Av and LogFC by Ben • 0
Continued here due to posting difficulties: Extract from the results table: ``` Inhibitor Vehicle lFC.Av LogFC ... F1 0.0 27…
Answer: DESeq2 for 16S rRNA Analysis by James W. MacDonald 68k
The Wald test is only meant for comparison of two groups at a time, so it depends on what you mean by 'analyze across multiple groups at a …
Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list' by varying.mastodon.isyn • 0
Oh, that error! I remember wrestling with that one for hours when I was first learning Python. Turns out I was trying to use a list itself …
Comment: Confirm that OpenStats will not be archived (pryr dependency) by Marina • 0
Thank you!
Comment: AnnotationForge makeOrgPackage rsqlite_send_query error by ansley.r.burtch • 0
Hi! I am sure you are well into your career now and haven't worked on this for a while, but I wanted to let you know this is still helping …
Votes
A: DESeq2 - VST eliminates zero values
Comment: Normalise to a housekeeping gene in DESEq2
Comment: limpa analysis advice
C: AnnotationForge makeOrgPackage rsqlite_send_query error
Answer: Limpa Pipeline Order
Awards • All
Popular Question to rcavalca ▴ 140
Popular Question to James W. MacDonald 68k
Popular Question to James Aiden • 0
Popular Question to shepherl 4.3k
Popular Question to fl ▴ 20
Locations • All
Germany, 21 minutes ago
United States, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
United States, 2 hours ago
United States, 3 hours ago
Traffic: 2722 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