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2
votes
2
replies
2.4k
views
Setting/finding the log odds detection threshold in custom homer PWMs
jaspar motif homer
updated 3.0 years ago by ★ 15k • written 5.5 years ago by ▴ 930
11
votes
9
replies
3.0k
views
How do I compute ld blocks from the hapmap ld_data?
ld snps
updated 2.1 years ago by ▴ 20 • written 3.8 years ago by ▴ 930
0
votes
0
replies
648
views
Global HMM annotation state bed for epigenome roadmap data?
roadmap epigenomics
4.0 years ago by endrebak ▴ 930
23
votes
14
replies
2.1k
views
Fast datastructure to get counts of overlapping reads per nucleotide (!) in Python?
python data-structure
4.2 years ago by endrebak ▴ 930
2
votes
3
replies
652
views
What do the positions '31776605 x 95917441' mean in GWAS catalogue data?
gwas-catalogue
updated 4.2 years ago by ▴ 550 • written 4.2 years ago by ▴ 930
0
votes
4
replies
935
views
Loading bigiwg into an an array in javascript?
bigwig javascript
4.3 years ago by endrebak ▴ 930
5
votes
7
replies
1.9k
views
How do I split a genomicrange on chromosome and strand?
genomicranges r bioconductor
updated 21 months ago by ▴ 140 • written 4.4 years ago by ▴ 930
6
votes
5
replies
4.4k
views
Create bigwigs in python?
ChIP-Seq
4.4 years ago by endrebak ▴ 930
7
votes
9
replies
3.3k
views
RefGene: how to find the starts and ends of genes?
refgene ucsc
updated 4.5 years ago by ▴ 640 • written 4.5 years ago by ▴ 930
2
votes
3
replies
1.0k
views
Can I get the same annotation data that is in ensembl gene annotation sets through mysql?
ensembl gtf
updated 4.5 years ago by 23k • written 4.5 years ago by ▴ 930
3
votes
3
replies
1.2k
views
How do I get ensembl genome sizes with mysql?
ensembl
updated 4.5 years ago by 23k • written 4.5 years ago by ▴ 930
13
votes
5
replies
1.6k
views
How do I get a list of all species with a fasta genome in UCSC?
UCSC
updated 4.9 years ago by 20 • written 6.2 years ago by ▴ 930
0
votes
5
replies
3.6k
views
Can genomicranges do bedtools-like intersection operations?
R
updated 5.2 years ago by ▴ 950 • written 5.3 years ago by ▴ 930
3
votes
8
replies
1.8k
views
Algorithms for finding nearest range given two lists of ranges?
algorithms
updated 4 months ago by 40k • written 5.4 years ago by ▴ 930
1
vote
4
replies
841
views
Does anyone have a working version of the nested containment list for Python?
nested containment list python
5.4 years ago by endrebak ▴ 930
4
votes
4
replies
1.5k
views
Dataset request: RNA-seq experiment that uses both single and paired end data with multiple experimental conditions
RNA-Seq sequencing
updated 5.6 years ago by 8.4k • written 5.6 years ago by ▴ 930
13
votes
5
replies
5.1k
views
Is bcf just a bgzipped vcf?
bcf vcf
updated 19 months ago by 157k • written 6.0 years ago by ▴ 930
7
votes
4
replies
1.9k
views
Different mappability/effective genome fraction with paired end reads? (ChIP-Seq)
ChIP-Seq
updated 6.9 years ago by 20 • written 7.4 years ago by ▴ 930
4
votes
8
replies
2.2k
views
Are there services/java libs I can use to upload files automatically for UCSC display?
java ucsc genome browser
updated 7.1 years ago by 5.0k • written 7.1 years ago by ▴ 930
5
votes
6
replies
2.0k
views
Given a link that displays genome browser data, how do I download a pdf using a link?
genome browser
7.1 years ago by endrebak ▴ 930
16
votes
6
replies
2.3k
views
ChIP-Seq: When reducing paired end reads to one coordinate, should I use the midpoint?
ChIP-Seq epic SICER
updated 7.1 years ago by ▴ 460 • written 7.1 years ago by ▴ 930
31
votes
21
replies
2.2k
views
7 follow
I want to store a docker image reproducing a paper. Is there a host for docker images of studies?
docker reproducible
updated 7.1 years ago by 28k • written 7.1 years ago by ▴ 930
9
votes
12
replies
2.4k
views
Public paired end chip seq dataset, both ChIP and input?
ChIP-Seq
updated 7.3 years ago by ★ 2.2k • written 7.3 years ago by ▴ 930
17
votes
18
replies
3.0k
views
How do I filter a bam on length with pybedtools?
pybedtools
updated 7.3 years ago by 5.0k • written 7.3 years ago by ▴ 930
0
votes
2
replies
2.2k
views
How to annotate one GenomicRanges object using another?
GenomicFeatures R
updated 7.3 years ago by ▴ 610 • written 7.3 years ago by ▴ 930
6
votes
3
replies
2.9k
views
How do I make a bigwig file from a matrix of counts?
ChIP-Seq
updated 7.4 years ago by 14k • written 7.4 years ago by ▴ 930
3
votes
4
replies
1.9k
views
How to find number of unique n-mers in genome?
alignment sequence
updated 7.5 years ago by 13k • written 7.5 years ago by ▴ 930
27 results • Page 1 of 1
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