Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
17
votes
34
replies
21k
views
10 follow
Issues installing bcl2fastq?
bcl2fastq demultiplexing
updated 20 months ago by ★ 2.5k • written 8.2 years ago by ▴ 350
0
votes
3
replies
4.3k
views
How to convert Jaspar motif to input into homer?
homer jaspar
updated 2.8 years ago by • 0 • written 7.0 years ago by ▴ 350
3
votes
2
replies
3.0k
views
UMAP of 10X and SmartSeq2 datasets on same plot
smartseq2 singlecellrna-seq umap 10xgenomics
updated 4.6 years ago by 89k • written 4.6 years ago by ▴ 350
18
votes
31
replies
13k
views
How can I easily remove overlapping transcripts, keeping only longest transcript, in a GFF file.
gff parse
updated 2.6 years ago by 9.3k • written 7.1 years ago by ▴ 350
1
vote
3
replies
4.2k
views
Finding differences in motif enrichment between ATAC peak samples?
atac-seq homer
updated 6.1 years ago by ▴ 30 • written 7.1 years ago by ▴ 350
0
votes
1
reply
2.0k
views
Performing differential binding analyses between ChIP samples using Deeptools (SES method normalization)
ChIP-Seq
updated 6.2 years ago by ▴ 70 • written 7.0 years ago by ▴ 350
5
votes
4
replies
5.7k
views
How can I find motifs under individual ATAC-peaks?
ATAC-seq
updated 6.3 years ago by ▴ 50 • written 7.1 years ago by ▴ 350
2
votes
1
reply
2.9k
views
TPM normalization factors in RNA-seq
rna-seq
6.5 years ago by a.rex ▴ 350
1
vote
0
replies
1.4k
views
Estimate Library Complexity Output Histogram - what do duplicate sets mean exactly?
picard alignment
6.6 years ago by a.rex ▴ 350
5
votes
3
replies
1.2k
views
How to interpret a short TLEN with 75bp PE seq?
sequence alignment
updated 6.6 years ago by 166k • written 6.6 years ago by ▴ 350
4
votes
8
replies
5.7k
views
Insert size of ~20bp with ATAC-seq?
alignment sequencing atac-seq
updated 6.6 years ago by 89k • written 6.6 years ago by ▴ 350
0
votes
1
reply
5.7k
views
Comment: C: Insert size of -20bp with ATAC-seq?
6.6 years ago by a.rex ▴ 350
0
votes
1
reply
5.7k
views
Comment: C: Insert size of -20bp with ATAC-seq?
6.6 years ago by a.rex ▴ 350
3
votes
3
replies
1.4k
views
Understanding 9th field of Bam file - insert size?
sequencing alignment
updated 6.6 years ago by 89k • written 6.6 years ago by ▴ 350
0
votes
0
replies
5.7k
views
Comment: A: Insert size of -20bp with ATAC-seq?
6.6 years ago by a.rex ▴ 350
0
votes
0
replies
5.7k
views
Comment: C: Insert size of -20bp with ATAC-seq?
6.6 years ago by a.rex ▴ 350
5
votes
3
replies
3.3k
views
How can I use featurecounts after generating a bam file using BWA?
RNA-Seq features counts
updated 6.7 years ago by 35k • written 6.7 years ago by ▴ 350
1
vote
0
replies
1.7k
views
How can I get Kimura distances for individual loci from my align.fa file from RepeatMasker
repeatmasker
updated 6.8 years ago by 20 • written 6.9 years ago by ▴ 350
3
votes
3
replies
2.6k
views
Finding motifs with Homer for obscure species.
genome atac-seq homer
updated 6.8 years ago by 20 • written 7.0 years ago by ▴ 350
5
votes
10
replies
5.5k
views
Explaining fragment distribution plots from ATAC-seq
atac-seq
updated 6.9 years ago by 20 • written 7.0 years ago by ▴ 350
4
votes
1
reply
3.4k
views
Using FeatureCounts for ChIP-seq normalised files?
deeptools ChIP-Seq
updated 6.9 years ago by 105k • written 6.9 years ago by ▴ 350
5
votes
6
replies
3.4k
views
Trouble with danpos2 installation - can anyone help?
danpos installation python
updated 7.0 years ago by 35k • written 7.0 years ago by ▴ 350
0
votes
1
reply
3.4k
views
Comment: C: Trouble with danpos2 installation - can anyone help?
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
3.4k
views
Comment: C: Trouble with danpos2 installation - can anyone help?
7.0 years ago by a.rex ▴ 350
0
votes
0
replies
1.5k
views
Can I use deeptools to calculate nucleosome positions?
deeptools atac
7.0 years ago by a.rex ▴ 350
0
votes
0
replies
3.7k
views
Comment: C: How can I correlate ATAC-seq peak signal with enhancer ChIP-seq mark signal (H3K
7.0 years ago by a.rex ▴ 350
2
votes
6
replies
3.7k
views
How can I correlate ATAC-seq peak signal with enhancer ChIP-seq mark signal (H3K4me1)?
ATAC ChIP
7.0 years ago by a.rex ▴ 350
1
vote
4
replies
3.9k
views
Explaining PCA plots made from BigWig coverage files in DeepTools
deeptools atac-seq
updated 7.0 years ago by 45k • written 7.0 years ago by ▴ 350
0
votes
2
replies
3.9k
views
Comment: C: Explaining PCA plots made from BigWig coverage files in DeepTools
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
1.5k
views
Is it common for ATAC-peaks to be located in Repeat Masker annotated regions?
genome atac-seq
7.0 years ago by a.rex ▴ 350
3
votes
1
reply
1.6k
views
Finding common peaks between F-seq peak region files
fseq atac
updated 7.0 years ago by 36k • written 7.0 years ago by ▴ 350
2
votes
2
replies
1.7k
views
Find unique non overlapping intervals between two files?
bed
updated 7.0 years ago by ★ 5.0k • written 7.0 years ago by ▴ 350
4
votes
3
replies
2.9k
views
Using BedTools to look at unique bed intervals between two files
bedtools
updated 7.0 years ago by 36k • written 7.0 years ago by ▴ 350
0
votes
0
replies
1.3k
views
What should I choose to best specify background sequences when looking for motifs under peaks in Homer?
Homer
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
2.6k
views
Comment: C: Finding motifs with Homer for obscure species.
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
2.2k
views
Fseq versus MACS2 for ATAC-seq
atac-seq
7.0 years ago by a.rex ▴ 350
0
votes
0
replies
5.5k
views
Comment: C: How can I look at find 'open chromatin' from ATAC-seq data using MACS2
7.0 years ago by a.rex ▴ 350
0
votes
0
replies
5.5k
views
Comment: C: Explaining fragment distribution plots from ATAC-seq
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
5.5k
views
Comment: C: Explaining fragment distribution plots from ATAC-seq
7.0 years ago by a.rex ▴ 350
0
votes
0
replies
5.5k
views
Comment: C: Explaining fragment distribution plots from ATAC-seq
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
12k
views
Comment: C: Using featureCounts and DESeq2 to look at differences between ATAC-seq condition
7.0 years ago by a.rex ▴ 350
0
votes
2
replies
12k
views
Comment: C: Using featureCounts and DESeq2 to look at differences between ATAC-seq condition
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
12k
views
Comment: C: Using featureCounts and DESeq2 to look at differences between ATAC-seq condition
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
12k
views
Comment: C: Using featureCounts and DESeq2 to look at differences between ATAC-seq condition
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
12k
views
Comment: C: Using featureCounts and DESeq2 to look at differences between ATAC-seq condition
7.0 years ago by a.rex ▴ 350
0
votes
1
reply
12k
views
Comment: C: Using featureCounts and DESeq2 to look at differences between ATAC-seq condition
7.0 years ago by a.rex ▴ 350
17
votes
14
replies
12k
views
Using featureCounts and DESeq2 to look at differences between ATAC-seq conditions.
ATAC-seq next-gen R
updated 14 months ago by ▴ 80 • written 7.0 years ago by ▴ 350
0
votes
0
replies
4.2k
views
Comment: C: Finding differences in motif enrichment between ATAC peak samples?
7.1 years ago by a.rex ▴ 350
0
votes
0
replies
2.8k
views
Comment: C: Mapping to repeat consensus sequences?
7.1 years ago by a.rex ▴ 350
0
votes
1
reply
2.8k
views
Comment: C: Mapping to repeat consensus sequences?
7.1 years ago by a.rex ▴ 350
130 results • Page 1 of 3
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