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118
votes
8
answers
59k
views
80 follow
8
answers
Tutorial: Piping With Samtools, Bwa And Bedtools
bedtools tutorial samtools unix bwa written 8.7 years ago by Ying W4.0k • updated 5.2 years ago by Yaseen Ladak30
54
votes
10
answers
8.0k
views
9 follow
10
answers
Tool: Bedtools: Analyzing Genomic Features
bedtools tool written 8.7 years ago by Istvan Albert ♦♦ 86k • updated 6.0 years ago by Aaronquinlan11k
90
votes
3
answers
54k
views
35 follow
3
answers
Bedtools Compare Multiple Bed Files?
bedtools intersect written 9.2 years ago by Bioscientist1.7k • updated 8.0 years ago by sjneph620
14
votes
1
answer
2.1k
views
8 follow
1
answer
Tutorial: Introduction to bedtools.
bedtools tutorial written 6.2 years ago by Aaronquinlan11k • updated 4.1 years ago by mcc80
36
votes
6
answers
12k
views
19 follow
6
answers
Annotating Genomic Intervals
bedtools annotation bioconductor R written 8.3 years ago by Stephen2.7k • updated 8.3 years ago by Alex Reynolds31k
11
votes
0
answers
5.7k
views
0
answers
Tutorial: Plot average methylation levels across TSS region
bedtools R tutorial methylation rrbs written 6.0 years ago by TriS4.3k • updated 6.0 years ago by Gjain5.5k
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 7.9 years ago by user870 • updated 17 months ago by ATpoint44k
32
votes
3
answers
9.1k
views
13 follow
3
answers
Picking Random Genomic Positions
perl bedtools bash written 8.5 years ago by PoGibas4.8k
32
votes
4
answers
14k
views
17 follow
4
answers
Getting Unmapped Reads: Comparing Fastq To Bam
bedtools fastq bam samtools written 9.1 years ago by User 9996810 • updated 9.1 years ago by brentp23k
23
votes
2
answers
8.2k
views
16 follow
2
answers
18
votes
3
answers
11k
views
13 follow
3
answers
Heatmap Of Read Coverage Around Tsss
bedtools coverage heatmap written 7.4 years ago by A. Domingues2.4k • updated 7.3 years ago by Ying W4.0k
28
votes
3
answers
6.4k
views
7 follow
3
answers
15
votes
2
answers
8.6k
views
2
answers
18
votes
5
answers
14k
views
14 follow
5
answers
Discrepancy In Samtools Mpileup/Depth And Bedtools Genomecoveragebed Counts
bedtools samtools written 7.8 years ago by Surya Saha260 • updated 7.2 years ago by plafdesigns40
25
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 9.0 years ago by Anima Mundi2.8k • updated 9.0 years ago by Aaronquinlan11k
12
votes
1
answer
4.0k
views
1
answer
How to find intron co-ordinates from the gff file?
bedtools gff open intron written 5.2 years ago by Chirag Parsania1.9k • updated 5.2 years ago by Devon Ryan98k
16
votes
1
answer
2.9k
views
1
answer
15
votes
1
answer
3.8k
views
1
answer
20
votes
3
answers
3.8k
views
7 follow
3
answers
How To Find The Nearest Gene To A Retrotransposon Insert?
bedtools bed position mouse written 8.8 years ago by Joseph Hughes2.9k • updated 8.8 years ago by Alex Reynolds31k
17
votes
2
answers
4.6k
views
6 follow
2
answers
Does Bedops Have A Command Similar To The Bedtools Makewindows?
bedtools written 8.0 years ago by Irsan7.2k • updated 6.0 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 7.7 years ago by komal.rathi3.7k • updated 14 months ago by Phoenix Mu40
17
votes
5
answers
8.5k
views
10 follow
5
answers
14
votes
3
answers
3.9k
views
3
answers
10
votes
3
answers
3.6k
views
5 follow
3
answers
How To Explain Uneven Coverage Of A Dna Seqment Obtained Via Pcr Amplification.
bedtools coverage written 6.8 years ago by rohan100 • updated 6.6 years ago by swbarnes29.4k
8
votes
2
answers
4.9k
views
2
answers
22
votes
1
answer
5.0k
views
1
answer
calling bedtools from R
bedtools R written 5.8 years ago by yasjas70 • updated 5.8 years ago by Irsan7.2k
11
votes
2
answers
8.0k
views
2
answers
Issue with naming convention in bedtools
bedtools sam written 5.8 years ago by A. Domingues2.4k • updated 12 months ago by Biostar ♦♦ 20
9
votes
2
answers
9.2k
views
2
answers
Can't convert paired end BAM to bed using bedtools
bedtools alignment bam written 5.6 years ago by colin.kern940 • updated 5.4 years ago by guillermofernandeznegrete0
5
votes
1
answer
2.5k
views
7 follow
1
answer
Tutorial: bam2rpkm by bedtools
bedtools rpkm tutorial bam rna-seq written 3.2 years ago by jmzeng1314110 • updated 7 weeks ago by ATpoint44k
5
votes
2
answers
6.5k
views
2
answers
Correlation Of Fpkm And Length Normalized Transcript Mapped Read Count
bedtools cufflinks next-gen written 8.4 years ago by johannes.helmuth110 • updated 2.4 years ago by Biostar ♦♦ 20
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