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54
votes
10
answers
8.0k
views
9 follow
10
answers
Tool: Bedtools: Analyzing Genomic Features
bedtools tool written 8.9 years ago by Istvan Albert ♦♦ 86k • updated 6.2 years ago by Aaronquinlan11k
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
10
votes
7
answers
5.5k
views
7 follow
7
answers
randomly shuffle BAM file
bedtools bam shuffle written 5.6 years ago by mparker220 • updated 3.8 years ago by skanterakis110
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
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
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
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
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
17
votes
5
answers
8.6k
views
10 follow
5
answers
2
votes
5
answers
1.0k
views
6 follow
5
answers
Expanding Genomic Coordinates Using Bedtools
bedtools bed tools genomc bed file written 2.7 years ago by gtasource60 • updated 2.7 years ago by Aaronquinlan11k
6
votes
5
answers
973
views
5 follow
5
answers
7
votes
5
answers
489
views
5 follow
5
answers
Pulling out interval adjoining regions
bedtools bed bedops interval written 2.3 years ago by rbronste380 • updated 2.3 years ago by Alex Reynolds31k
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
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
4
votes
4
answers
4.1k
views
6 follow
4
answers
Extract Only Paired-End Reads That Map A Specific Interval
bedtools extraction written 8.5 years ago by Nicolas Rosewick9.3k • updated 2.4 years ago by pnatsidis0
6
votes
4
answers
6.5k
views
5 follow
4
answers
N Closest Genes To A Given Location
bedtools intersect written 8.4 years ago by dfernan700 • updated 8.4 years ago by Alex Reynolds31k
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
5
votes
4
answers
2.2k
views
5 follow
4
answers
1
vote
4
answers
5.1k
views
5 follow
4
answers
14
votes
4
answers
7.0k
views
6 follow
4
answers
Calculating GC content from BAM file by BED file
cg content bed bam bedtools written 6.2 years ago by Paul1.4k • updated 6.2 years ago by Aaronquinlan11k
5
votes
4
answers
5.9k
views
4
answers
Intersect multiple bed and keep all fields
bedtools bed bedops written 5.6 years ago by user230613280 • updated 3.4 years ago by Ashley M. Conard0
1
vote
4
answers
985
views
4
answers
Generate bed co-ordinates other then given input bed file
bedfile bedtools written 4.8 years ago by Chirag Parsania1.9k • updated 4.8 years ago by A. Domingues2.4k
0
votes
4
answers
1.9k
views
4
answers
condition bedtools on name column
bedtools written 4.6 years ago by burnsro20 • updated 4.6 years ago by Alex Reynolds31k
15
votes
4
answers
9.1k
views
14 follow
4
answers
6
votes
4
answers
2.7k
views
4
answers
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
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
7
votes
3
answers
6.2k
views
5 follow
3
answers
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
28
votes
3
answers
6.4k
views
7 follow
3
answers
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