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<prev • 531 results • page 1 of 18 • next >
113
votes
8
answers
53k
views
77 follow
8
answers
Tutorial: Piping With Samtools, Bwa And Bedtools
bedtools tutorial samtools unix bwa written 7.7 years ago by Ying W • 4.0k • updated 4.2 years ago by Yaseen Ladak • 30
83
votes
3
answers
47k
views
31 follow
3
answers
Bedtools Compare Multiple Bed Files?
bedtools intersect written 8.2 years ago by Bioscientist • 1.7k • updated 7.0 years ago by sjneph • 600
32
votes
6
answers
25k
views
19 follow
6
answers
Converting Bam To Bedgraph For Viewing On Ucsc?
bedtools bed bam genome-browser ucsc written 6.9 years ago by user • 840 • updated 4 months ago by ATpoint ♦ 28k
25
votes
2
answers
25k
views
11 follow
2
answers
Converting Gff To Bed With Bedtools?
bedtools bed gff conversion written 7.0 years ago by user • 840 • updated 7.0 years ago by Alex Reynolds ♦ 29k
28
votes
5
answers
23k
views
17 follow
5
answers
Bedtools Genomecoveragebed Usage : How To Create A Genome File?
bedtools written 6.7 years ago by komal.rathi • 3.5k • updated 11 weeks ago by Phoenix Mu • 10
25
votes
1
answer
20k
views
6 follow
1
answer
How To Use Bedtools To Extract Promoters From A Mouse Bed File
bedtools bed extraction promoter fasta written 8.0 years ago by Anima Mundi • 2.5k • updated 8.0 years ago by Aaronquinlan ♦ 11k
11
votes
5
answers
16k
views
9 follow
5
answers
How Can I Compare And Merge Bed Files
bedtools bed written 7.5 years ago by lyfsa • 30 • updated 6.7 years ago by beary.pooh • 10
32
votes
4
answers
14k
views
17 follow
4
answers
Getting Unmapped Reads: Comparing Fastq To Bam
bedtools fastq bam samtools written 8.1 years ago by User 9996 • 810 • updated 8.1 years ago by brentp ♦ 23k
17
votes
5
answers
13k
views
13 follow
5
answers
Discrepancy In Samtools Mpileup/Depth And Bedtools Genomecoveragebed Counts
bedtools samtools written 6.8 years ago by Surya Saha • 260 • updated 6.2 years ago by plafdesigns • 30
36
votes
6
answers
11k
views
19 follow
6
answers
Annotating Genomic Intervals
bedtools annotation bioconductor R written 7.3 years ago by Stephen ♦ 2.7k • updated 7.3 years ago by Alex Reynolds ♦ 29k
13
votes
3
answers
10k
views
3
answers
Error: unable to open file or unable to determine types for file bed file
bedtools bed sequencing written 5.0 years ago by sebastianzeki0 • 170
18
votes
3
answers
9.7k
views
13 follow
3
answers
Heatmap Of Read Coverage Around Tsss
bedtools coverage heatmap written 6.4 years ago by A. Domingues • 2.2k • updated 6.3 years ago by Ying W • 4.0k
3
votes
4
answers
9.4k
views
5 follow
4
answers
Genomecoveragebed - Bedtool For Reporting Per Base Genome Coverage
bedtools coverage written 7.9 years ago by Varun Gupta • 1.1k • updated 6.0 years ago by hygine555 • 0
2
votes
1
answer
8.9k
views
1
answer
Coveragebed, Depth/Breadth Of Coverage
bedtools coverage written 8.6 years ago by Newbionf • 10 • updated 8.6 years ago by Istvan Albert ♦♦ 82k
20
votes
4
answers
8.7k
views
10 follow
4
answers
How To Extract Scores From Bedgraph File Using Bed Tools
bedtools written 7.0 years ago by biorepine • 1.4k • updated 10 months ago by brianpenghe • 20
32
votes
3
answers
8.3k
views
13 follow
3
answers
Picking Random Genomic Positions
perl bedtools bash written 7.5 years ago by PoGibas ♦ 4.8k
12
votes
3
answers
8.0k
views
3
answers
How to generate BedGraph from BedTools Coverage?
bedtools bed genomic written 4.3 years ago by SmallChess • 500 • updated 4.3 years ago by Alex Reynolds ♦ 29k
11
votes
3
answers
7.9k
views
5 follow
3
answers
Multi Thread Bedtools
bedtools parallel written 8.1 years ago by Nicolas Rosewick ♦ 8.6k • updated 5.5 years ago by Biostar ♦♦ 20
15
votes
2
answers
7.9k
views
2
answers
Reproduce Encode/Cshl Long Rna-Seq Data Visualization Viewed In Ucsc, But Failed? [Done]
bedtools encode visualization rna-seq written 7.3 years ago by Puriney • 330 • updated 7.3 years ago by Malachi Griffith ♦ 18k
9
votes
2
answers
7.9k
views
2
answers
Can't convert paired end BAM to bed using bedtools
bedtools alignment bam written 4.6 years ago by colin.kern • 770 • updated 4.4 years ago by guillermofernandeznegrete • 0
10
votes
2
answers
7.8k
views
5 follow
2
answers
How To Get Annotation For Bed File From Another Bed File
bedtools annotation written 7.2 years ago by k.nirmalraman • 1.0k • updated 5.2 years ago by Biostar ♦♦ 20
17
votes
5
answers
7.7k
views
10 follow
5
answers
What Is The Fastest Method To Determine The Number Of Positions In A Bam File With >N Coverage?
bedtools depth-of-coverage bam samtools coverage written 6.7 years ago by Malachi Griffith ♦ 18k • updated 14 months ago by Paul • 1.4k
5
votes
1
answer
7.7k
views
1
answer
Intersectbed - Overlap Analysis Usign Vcf And Bed Files
bedtools written 7.5 years ago by Khader Shameer ♦ 18k • updated 7.5 years ago by Sukhdeep Singh ♦ 10.0k
1
vote
1
answer
7.7k
views
1
answer
bedtools merge, ERROR: file has non positional records, which are only valid for the groupBy tool.
bedtools written 3.2 years ago by bio315eskildsen • 10
7
votes
3
answers
7.6k
views
5 follow
3
answers
Convert .Txt Into Bed Files
bedtools comparison written 8.5 years ago by Bioscientist • 1.7k • updated 8.5 years ago by Swbarnes2 • 1.5k
54
votes
10
answers
7.6k
views
9 follow
10
answers
Tool: Bedtools: Analyzing Genomic Features
bedtools tool written 7.7 years ago by Istvan Albert ♦♦ 82k • updated 5.0 years ago by Aaronquinlan ♦ 11k
6
votes
3
answers
7.4k
views
8 follow
3
answers
How To Install Bedtools In A User Directory
bedtools written 6.6 years ago by alittleboy • 210 • updated 5.8 years ago by paulr • 80
15
votes
4
answers
7.3k
views
14 follow
4
answers
bedtools coverage gives error received illegal bin number, but that number isn't in my data!
bedtools bin chip-seq coverage error written 2.9 years ago by tara.alpert • 30 • updated 8 months ago by iqra • 0
23
votes
2
answers
7.2k
views
16 follow
2
answers
How To Count Genes In Genomic Regions Using A Gtf/Gff3 And A Bed File Of Regions
bedtools gtf gff written 6.9 years ago by Nick Crawford • 210
6
votes
3
answers
7.0k
views
3
answers
bedtools 2.0 merge - "unable to open file or unable to determine types"
bedtools written 5.3 years ago by Zev.Kronenberg ♦ 11k • updated 4.5 years ago by trutane • 30
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