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118
votes
8
answers
57k
views
80 follow
8
answers
Tutorial: Piping With Samtools, Bwa And Bedtools
bedtools tutorial samtools unix bwa written 8.5 years ago by Ying W4.0k • updated 5.0 years ago by Yaseen Ladak30
54
votes
10
answers
7.9k
views
9 follow
10
answers
Tool: Bedtools: Analyzing Genomic Features
bedtools tool written 8.5 years ago by Istvan Albert ♦♦ 85k • updated 5.8 years ago by Aaronquinlan11k
89
votes
3
answers
53k
views
33 follow
3
answers
Bedtools Compare Multiple Bed Files?
bedtools intersect written 9.0 years ago by Bioscientist1.7k • updated 7.8 years ago by sjneph620
14
votes
1
answer
2.1k
views
8 follow
1
answer
Tutorial: Introduction to bedtools.
bedtools tutorial written 5.9 years ago by Aaronquinlan11k • updated 3.9 years ago by mcc80
36
votes
6
answers
11k
views
19 follow
6
answers
Annotating Genomic Intervals
bedtools annotation bioconductor R written 8.1 years ago by Stephen2.7k • updated 8.1 years ago by Alex Reynolds31k
11
votes
0
answers
5.5k
views
0
answers
Tutorial: Plot average methylation levels across TSS region
bedtools R tutorial methylation rrbs written 5.7 years ago by TriS4.2k • updated 5.7 years ago by Gjain5.5k
32
votes
6
answers
26k
views
19 follow
6
answers
Converting Bam To Bedgraph For Viewing On Ucsc?
bedtools bed bam genome-browser ucsc written 7.7 years ago by user850 • updated 14 months ago by ATpoint40k
32
votes
3
answers
8.9k
views
13 follow
3
answers
Picking Random Genomic Positions
perl bedtools bash written 8.3 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 8.9 years ago by User 9996810 • updated 8.9 years ago by brentp23k
23
votes
2
answers
8.0k
views
16 follow
2
answers
18
votes
3
answers
10k
views
13 follow
3
answers
Heatmap Of Read Coverage Around Tsss
bedtools coverage heatmap written 7.2 years ago by A. Domingues2.3k • updated 7.1 years ago by Ying W4.0k
28
votes
3
answers
6.3k
views
7 follow
3
answers
15
votes
2
answers
8.4k
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 7.6 years ago by Surya Saha260 • updated 7.0 years ago by plafdesigns40
25
votes
1
answer
23k
views
6 follow
1
answer
How To Use Bedtools To Extract Promoters From A Mouse Bed File
bedtools bed extraction promoter fasta written 8.7 years ago by Anima Mundi2.7k • updated 8.7 years ago by Aaronquinlan11k
12
votes
1
answer
3.7k
views
1
answer
How to find intron co-ordinates from the gff file?
bedtools gff open intron written 5.0 years ago by Chirag Parsania1.9k • updated 5.0 years ago by Devon Ryan97k
16
votes
1
answer
2.7k
views
1
answer
15
votes
1
answer
3.7k
views
1
answer
20
votes
3
answers
3.7k
views
7 follow
3
answers
How To Find The Nearest Gene To A Retrotransposon Insert?
bedtools bed position mouse written 8.6 years ago by Joseph Hughes2.8k • updated 8.6 years ago by Alex Reynolds31k
17
votes
2
answers
4.5k
views
6 follow
2
answers
Does Bedops Have A Command Similar To The Bedtools Makewindows?
bedtools written 7.8 years ago by Irsan7.2k • updated 5.8 years ago by Alex Reynolds31k
31
votes
5
answers
26k
views
17 follow
5
answers
Bedtools Genomecoveragebed Usage : How To Create A Genome File?
bedtools written 7.5 years ago by komal.rathi3.7k • updated 12 months ago by Phoenix Mu40
17
votes
5
answers
8.3k
views
10 follow
5
answers
14
votes
3
answers
3.8k
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 6.6 years ago by rohan100 • updated 6.4 years ago by swbarnes28.9k
8
votes
2
answers
4.8k
views
2
answers
22
votes
1
answer
4.8k
views
1
answer
calling bedtools from R
bedtools R written 5.6 years ago by yasjas70 • updated 5.6 years ago by Irsan7.2k
11
votes
2
answers
7.6k
views
2
answers
Issue with naming convention in bedtools
bedtools sam written 5.5 years ago by A. Domingues2.3k • updated 9 months ago by Biostar ♦♦ 20
9
votes
2
answers
8.9k
views
2
answers
Can't convert paired end BAM to bed using bedtools
bedtools alignment bam written 5.3 years ago by colin.kern930 • updated 5.2 years ago by guillermofernandeznegrete0
4
votes
0
answers
2.2k
views
5 follow
0
answers
Tutorial: bam2rpkm by bedtools
bedtools rpkm tutorial bam rna-seq written 3.0 years ago by jmzeng1314100
5
votes
2
answers
6.5k
views
2
answers
Correlation Of Fpkm And Length Normalized Transcript Mapped Read Count
bedtools cufflinks next-gen written 8.2 years ago by johannes.helmuth110 • updated 2.1 years ago by Biostar ♦♦ 20
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