Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
Showing : questions
38
votes
26
replies
18k
views
16 follow
GO analysis: DAVID vs GREAT vs GOrilla
RNA-Seq ChIP-Seq GO gene ontology
written 8.2 years ago by ▴ 370
0
votes
9
replies
1.9k
views
Bowtie paired-end mapping: insert size issue
alignment mapping bowtie
updated 2.3 years ago by 141k • written 2.3 years ago by ▴ 370
3
votes
2
replies
810
views
Mapping SRA files without unpacking?
alignment Bowtie SRA sequencing
updated 2.5 years ago by 81k • written 2.5 years ago by ▴ 370
3
votes
9
replies
3.6k
views
7 follow
Gene Ontology without enrichment analysis
next-gen RNA-Seq ChIP-Seq
updated 4.3 years ago by ▴ 10 • written 8.1 years ago by ▴ 370
4
votes
9
replies
1.8k
views
Correlation of two ChIP-seq signals?
ChIP-Seq
updated 4.3 years ago by ★ 2.2k • written 4.4 years ago by ▴ 370
0
votes
11
replies
2.0k
views
Problem mapping paired-end Illumina reads
ChIP-Seq alignment paired-end
updated 5.3 years ago by 14k • written 5.3 years ago by ▴ 370
3
votes
1
reply
2.4k
views
How to create BigWig files with normalised signal using ChIP-seq and Input?
ChIP-Seq BigWig
updated 5.3 years ago by 104k • written 5.3 years ago by ▴ 370
2
votes
0
replies
1.0k
views
Heatmaps of bisulfite sequencing data
heatmap methylation
5.4 years ago by biostart ▴ 370
1
vote
1
reply
1.7k
views
HOMER works incorrectly with -sspe option for paired-end reads
ChIP-Seq HOMER
updated 5.7 years ago by 87k • written 5.7 years ago by ▴ 370
1
vote
3
replies
2.1k
views
MACS peak calling of paired-end reads in SAM format
ChIP-Seq MACS SAM
5.7 years ago by biostart ▴ 370
5
votes
9
replies
4.2k
views
6 follow
Peak calling for broad histone-modification regions
ChIP-Seq
updated 6.9 years ago by ▴ 470 • written 7.0 years ago by ▴ 370
2
votes
3
replies
4.9k
views
What's the name in RepeatMasker for mouse major satellite repeats?
sequence alignment RNA-Seq
updated 7.1 years ago by ▴ 60 • written 7.1 years ago by ▴ 370
0
votes
5
replies
2.9k
views
Motif finding with HOMER
ChIP-Seq sequencing motif pwm
7.4 years ago by biostart ▴ 370
1
vote
2
replies
2.8k
views
Are HOMER aggregate proflles normalized to the read depth of each ChIP-seq sample? [still open]
ChIP-Seq sequencing
updated 7.4 years ago by 20 • written 8.3 years ago by ▴ 370
6
votes
10
replies
3.5k
views
Statistical test to compare the number of upregulated genes in a subgroup of genes versus all genes?
rna-seq
updated 7.6 years ago by ▴ 270 • written 7.6 years ago by ▴ 370
2
votes
7
replies
3.1k
views
Statistical test to compare expression change in a subgroup of genes versus all genes?
RNA-Seq
updated 7.6 years ago by 35k • written 7.6 years ago by ▴ 370
2
votes
8
replies
2.9k
views
Mann-Whitney test -- is it applicable to compare log2 fold change in a subset of genes to all genes?
RNA-Seq
7.6 years ago by biostart ▴ 370
9
votes
10
replies
2.2k
views
[solved] Convert fold changes of multiple transcripts of a given gene to a single value characterising this gene
RNA-Seq
7.6 years ago by biostart ▴ 370
4
votes
4
replies
2.3k
views
Converting CpG methylation calls to average genome coverage
DNA methylation BS-seq
updated 7.9 years ago by 20 • written 8.0 years ago by ▴ 370
1
vote
4
replies
3.0k
views
[solved] Bowtie mapping paired-end reads of different length
ChIP-Seq
8.1 years ago by biostart ▴ 370
0
votes
1
reply
2.9k
views
bedtools closest (output file format)
bedtools RNA-Seq ChIP-Seq
updated 8.1 years ago by 35k • written 8.1 years ago by ▴ 370
3
votes
7
replies
2.4k
views
Separating gene list into chromatin domains and analysing separately within each domain
RNA-Seq ChIP-Seq Hi-C
updated 8.1 years ago by 35k • written 8.1 years ago by ▴ 370
1
vote
2
replies
2.1k
views
Problem mapping SOLiD reads with Bowtie1
sequencing ChIP-Seq
updated 21 months ago by 43k • written 8.2 years ago by ▴ 370
5
votes
5
replies
7.4k
views
How to calculate enrichment P-value?
ChIP-Seq
updated 21 months ago by 43k • written 8.2 years ago by ▴ 370
6
votes
3
replies
5.4k
views
BedTools can't find "hg19.genome"
ChIP-Seq
updated 8.2 years ago by 141k • written 8.2 years ago by ▴ 370
5
votes
19
replies
5.4k
views
Merging many BAM files [solved]
next-gen ChIP-Seq rna-seq
updated 21 months ago by 43k • written 8.2 years ago by ▴ 370
2
votes
1
reply
3.1k
views
Can I use HOMER to create a tag dir from a 400 Gb BAM file?
RNA-Seq ChIP-Seq
updated 8.2 years ago by 11k • written 8.2 years ago by ▴ 370
3
votes
9
replies
2.3k
views
SOLiD reads unreadable to Bowtie after unpacking from .sra archive [still open]
ChIP-Seq alignment
updated 2.0 years ago by 43k • written 8.3 years ago by ▴ 370
4
votes
4
replies
4.6k
views
Splice site coordinates: where to get them?
RNA-Seq ChIP-Seq sequence next-gen
updated 8.3 years ago by 26k • written 8.3 years ago by ▴ 370
0
votes
4
replies
2.4k
views
Is it typical to find a ~30 bp motif enriched in promoters of ~20 related genes?
ChIP-Seq motif promoter enhancer rna-seq
updated 2.1 years ago by 43k • written 9.3 years ago by ▴ 370
30 results • Page 1 of 1
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