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HOMER works incorrectly with -sspe option for paired-end reads
ChIP-Seq HOMER
updated 5 months ago by • 0 • written 6.8 years ago by ▴ 370
38
votes
26
replies
21k
views
16 follow
GO analysis: DAVID vs GREAT vs GOrilla
RNA-Seq ChIP-Seq GO gene ontology
written 9.2 years ago by ▴ 370
0
votes
1
reply
2.5k
views
Comment: Comment: Bowtie paired-end mapping: insert size issue
3.3 years ago by biostart ▴ 370
0
votes
1
reply
2.5k
views
Comment: Comment: Bowtie paired-end mapping: insert size issue
3.3 years ago by biostart ▴ 370
0
votes
1
reply
2.5k
views
Comment: Comment: Bowtie paired-end mapping: insert size issue
3.3 years ago by biostart ▴ 370
0
votes
1
reply
2.5k
views
Comment: Comment: Bowtie paired-end mapping: insert size issue
3.3 years ago by biostart ▴ 370
0
votes
9
replies
2.5k
views
Bowtie paired-end mapping: insert size issue
alignment mapping bowtie
updated 3.3 years ago by 151k • written 3.3 years ago by ▴ 370
3
votes
2
replies
1.1k
views
Mapping SRA files without unpacking?
alignment Bowtie SRA sequencing
updated 3.6 years ago by 88k • written 3.6 years ago by ▴ 370
0
votes
0
replies
3.1k
views
Comment: C: Are HOMER aggregate proflles normalized to the read depth of each ChIP-seq sampl
updated 5.4 years ago by 45k • written 9.3 years ago by ▴ 370
3
votes
9
replies
4.2k
views
7 follow
Gene Ontology without enrichment analysis
next-gen RNA-Seq ChIP-Seq
updated 5.4 years ago by ▴ 10 • written 9.2 years ago by ▴ 370
0
votes
0
replies
2.8k
views
Comment: C: SOLiD reads unreadable to Bowtie after unpacking from .sra archive [still open]
updated 5.4 years ago by 45k • written 9.3 years ago by ▴ 370
0
votes
0
replies
2.8k
views
Comment: C: SOLiD reads unreadable to Bowtie after unpacking from .sra archive
updated 5.4 years ago by 45k • written 9.3 years ago by ▴ 370
4
votes
9
replies
2.4k
views
Correlation of two ChIP-seq signals?
ChIP-Seq
updated 5.4 years ago by ★ 2.2k • written 5.5 years ago by ▴ 370
0
votes
1
reply
2.4k
views
Comment: C: Correlation of two ChIP-seq signals?
5.4 years ago by biostart ▴ 370
0
votes
1
reply
2.4k
views
Comment: C: Correlation of two ChIP-seq signals?
5.5 years ago by biostart ▴ 370
0
votes
0
replies
2.4k
views
Comment: C: Correlation of two ChIP-seq signals?
5.5 years ago by biostart ▴ 370
0
votes
0
replies
2.6k
views
Comment: C: Problem mapping paired-end Illumina reads
6.4 years ago by biostart ▴ 370
0
votes
1
reply
2.6k
views
Comment: C: Problem mapping paired-end Illumina reads
6.4 years ago by biostart ▴ 370
0
votes
1
reply
2.6k
views
Comment: C: Problem mapping paired-end Illumina reads
6.4 years ago by biostart ▴ 370
0
votes
1
reply
2.6k
views
Comment: C: Problem mapping paired-end Illumina reads
6.4 years ago by biostart ▴ 370
0
votes
0
replies
2.6k
views
Comment: C: Problem mapping paired-end Illumina reads
6.4 years ago by biostart ▴ 370
0
votes
1
reply
2.6k
views
Comment: C: Problem mapping paired-end Illumina reads
6.4 years ago by biostart ▴ 370
0
votes
1
reply
2.6k
views
Comment: C: Problem mapping paired-end Illumina reads
6.4 years ago by biostart ▴ 370
0
votes
0
replies
1.1k
views
Answer: A: Associating DNA methylation and nucleosome occupancy with AS events
6.4 years ago by biostart ▴ 370
0
votes
11
replies
2.6k
views
Problem mapping paired-end Illumina reads
ChIP-Seq alignment paired-end
updated 6.4 years ago by 14k • written 6.4 years ago by ▴ 370
0
votes
1
reply
1.6k
views
Answer: A: Confusion of TF-gene interactions database
6.4 years ago by biostart ▴ 370
1
vote
0
replies
1.2k
views
Answer: A: Is GC-bias correction valid for MeDIP-seq data preprocessing?
6.4 years ago by biostart ▴ 370
0
votes
0
replies
1.4k
views
Comment: C: Binding affinity DB out there?
6.4 years ago by biostart ▴ 370
3
votes
1
reply
2.7k
views
How to create BigWig files with normalised signal using ChIP-seq and Input?
ChIP-Seq BigWig
updated 6.4 years ago by 105k • written 6.4 years ago by ▴ 370
2
votes
0
replies
1.2k
views
Heatmaps of bisulfite sequencing data
heatmap methylation
6.5 years ago by biostart ▴ 370
0
votes
0
replies
17k
views
Comment: A: Add labels in the annotation bar of pheatmap
6.8 years ago by biostart ▴ 370
0
votes
0
replies
2.5k
views
Comment: C: MACS peak calling of paired-end reads in SAM format
6.8 years ago by biostart ▴ 370
1
vote
3
replies
2.5k
views
MACS peak calling of paired-end reads in SAM format
ChIP-Seq MACS SAM
6.8 years ago by biostart ▴ 370
5
votes
9
replies
5.1k
views
6 follow
Peak calling for broad histone-modification regions
ChIP-Seq
updated 8.0 years ago by ▴ 480 • written 8.0 years ago by ▴ 370
0
votes
0
replies
5.1k
views
Comment: C: Peak calling for broad histone-modification regions
8.0 years ago by biostart ▴ 370
0
votes
1
reply
5.1k
views
Comment: C: Peak calling for broad histone-modification regions using MACS or HOMER
8.0 years ago by biostart ▴ 370
2
votes
3
replies
5.9k
views
What's the name in RepeatMasker for mouse major satellite repeats?
sequence alignment RNA-Seq
updated 8.1 years ago by ▴ 60 • written 8.2 years ago by ▴ 370
0
votes
0
replies
5.9k
views
Comment: C: What's the name in RepeatMasker for mouse major satellite repeats?
8.2 years ago by biostart ▴ 370
1
vote
0
replies
1.4k
views
Comment: C: bias correction (an example from ChIP-seq)
8.2 years ago by biostart ▴ 370
0
votes
0
replies
3.5k
views
Answer: C: Motif finding with HOMER
8.5 years ago by biostart ▴ 370
0
votes
1
reply
3.5k
views
Comment: C: Motif finding with HOMER
8.5 years ago by biostart ▴ 370
0
votes
5
replies
3.5k
views
Motif finding with HOMER
ChIP-Seq sequencing motif pwm
8.5 years ago by biostart ▴ 370
1
vote
2
replies
3.1k
views
Are HOMER aggregate proflles normalized to the read depth of each ChIP-seq sample? [still open]
ChIP-Seq sequencing
updated 8.5 years ago by 20 • written 9.3 years ago by ▴ 370
0
votes
0
replies
2.3k
views
Comment: C: find motif enrichment/depletion analysis
8.6 years ago by biostart ▴ 370
0
votes
0
replies
4.4k
views
Comment: C: Statistical test to compare the number of upregulated genes in a subgroup of gen
8.6 years ago by biostart ▴ 370
0
votes
1
reply
4.4k
views
Comment: C: Statistical test to compare the number of upregulated genes in a subgroup of gen
8.6 years ago by biostart ▴ 370
0
votes
1
reply
4.4k
views
Comment: C: Statistical test to compare the number of upregulated genes in a subgroup of gen
8.6 years ago by biostart ▴ 370
1
vote
1
reply
2.4k
views
Comment: C: Nucleosome Peak Callers
8.6 years ago by biostart ▴ 370
6
votes
10
replies
4.4k
views
Statistical test to compare the number of upregulated genes in a subgroup of genes versus all genes?
rna-seq
updated 8.6 years ago by ▴ 270 • written 8.6 years ago by ▴ 370
2
votes
0
replies
2.7k
views
Answer: A: Nucleosome positioning dataset
8.6 years ago by biostart ▴ 370
104 results • Page 1 of 3
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