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119
votes
8
answers
59k
views
80 follow
8
answers
Tutorial: Piping With Samtools, Bwa And Bedtools
bedtools tutorial samtools unix bwa written 8.9 years ago by Ying W4.0k • updated 5.3 years ago by Yaseen Ladak30
90
votes
3
answers
55k
views
35 follow
3
answers
Bedtools Compare Multiple Bed Files?
bedtools intersect written 9.4 years ago by Bioscientist1.7k • updated 8.1 years ago by sjneph620
25
votes
2
answers
29k
views
11 follow
2
answers
Converting Gff To Bed With Bedtools?
bedtools bed gff conversion written 8.1 years ago by user870 • updated 8.1 years ago by Alex Reynolds31k
32
votes
5
answers
27k
views
17 follow
5
answers
Bedtools Genomecoveragebed Usage : How To Create A Genome File?
bedtools written 7.8 years ago by komal.rathi3.7k • updated 16 months ago by Phoenix Mu40
32
votes
6
answers
27k
views
19 follow
6
answers
Converting Bam To Bedgraph For Viewing On Ucsc?
bedtools bed bam genome-browser ucsc written 8.0 years ago by user870 • updated 18 months ago by ATpoint46k
27
votes
1
answer
24k
views
6 follow
1
answer
How To Use Bedtools To Extract Promoters From A Mouse Bed File
bedtools bed extraction promoter fasta written 9.1 years ago by Anima Mundi2.8k • updated 9.1 years ago by Aaronquinlan11k
11
votes
5
answers
20k
views
9 follow
5
answers
How Can I Compare And Merge Bed Files
bedtools bed written 8.6 years ago by lyfsa30 • updated 7.9 years ago by beary.pooh10
32
votes
4
answers
14k
views
17 follow
4
answers
Getting Unmapped Reads: Comparing Fastq To Bam
bedtools fastq bam samtools written 9.2 years ago by User 9996810 • updated 9.2 years ago by brentp23k
18
votes
5
answers
14k
views
14 follow
5
answers
Discrepancy In Samtools Mpileup/Depth And Bedtools Genomecoveragebed Counts
bedtools samtools written 7.9 years ago by Surya Saha260 • updated 7.3 years ago by plafdesigns40
14
votes
3
answers
13k
views
3
answers
36
votes
6
answers
12k
views
19 follow
6
answers
Annotating Genomic Intervals
bedtools annotation bioconductor R written 8.4 years ago by Stephen2.8k • updated 8.4 years ago by Alex Reynolds31k
18
votes
3
answers
11k
views
13 follow
3
answers
Heatmap Of Read Coverage Around Tsss
bedtools coverage heatmap written 7.5 years ago by A. Domingues2.4k • updated 7.5 years ago by Ying W4.0k
12
votes
3
answers
10k
views
3
answers
How to generate BedGraph from BedTools Coverage?
bedtools bed genomic written 5.4 years ago by SmallChess540 • updated 5.4 years ago by Alex Reynolds31k
3
votes
4
answers
9.9k
views
5 follow
4
answers
Genomecoveragebed - Bedtool For Reporting Per Base Genome Coverage
bedtools coverage written 9.0 years ago by Varun Gupta1.2k • updated 7.1 years ago by hygine5550
2
votes
1
answer
9.8k
views
1
answer
Coveragebed, Depth/Breadth Of Coverage
bedtools coverage written 9.7 years ago by Newbionf10 • updated 9.7 years ago by Istvan Albert ♦♦ 86k
20
votes
4
answers
9.8k
views
10 follow
4
answers
How To Extract Scores From Bedgraph File Using Bed Tools
bedtools written 8.1 years ago by biorepine1.5k • updated 2.0 years ago by brianpenghe50
13
votes
3
answers
9.8k
views
5 follow
3
answers
Multi Thread Bedtools
bedtools parallel written 9.2 years ago by Nicolas Rosewick9.3k • updated 6.6 years ago by Biostar ♦♦ 20
1
vote
1
answer
9.6k
views
1
answer
9
votes
2
answers
9.3k
views
2
answers
Can't convert paired end BAM to bed using bedtools
bedtools alignment bam written 5.7 years ago by colin.kern950 • updated 5.5 years ago by guillermofernandeznegrete0
32
votes
3
answers
9.2k
views
13 follow
3
answers
Picking Random Genomic Positions
perl bedtools bash written 8.7 years ago by PoGibas4.9k
15
votes
4
answers
9.1k
views
14 follow
4
answers
10
votes
2
answers
8.8k
views
5 follow
2
answers
How To Get Annotation For Bed File From Another Bed File
bedtools annotation written 8.3 years ago by k.nirmalraman1.1k • updated 6.3 years ago by Biostar ♦♦ 20
7
votes
3
answers
8.7k
views
5 follow
3
answers
Convert .Txt Into Bed Files
bedtools comparison written 9.6 years ago by Bioscientist1.7k • updated 9.6 years ago by Swbarnes21.5k
15
votes
2
answers
8.7k
views
2
answers
2
votes
2
answers
8.6k
views
2
answers
17
votes
5
answers
8.6k
views
10 follow
5
answers
6
votes
3
answers
8.3k
views
8 follow
3
answers
How To Install Bedtools In A User Directory
bedtools written 7.7 years ago by alittleboy220 • updated 6.9 years ago by paulr80
23
votes
2
answers
8.3k
views
16 follow
2
answers
5
votes
1
answer
8.2k
views
1
answer
Intersectbed - Overlap Analysis Usign Vcf And Bed Files
bedtools written 8.6 years ago by Khader Shameer18k • updated 8.6 years ago by Sukhi Singh10k
11
votes
2
answers
8.1k
views
2
answers
Issue with naming convention in bedtools
bedtools sam written 5.9 years ago by A. Domingues2.4k • updated 13 months ago by Biostar ♦♦ 20
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