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<prev • 499 results • page 1 of 17 • next >
54
votes
10
answers
7.3k
views
9 follow
10
answers
Tool: Bedtools: Analyzing Genomic Features
bedtools tool written 7.1 years ago by Istvan Albert ♦♦ 80k • updated 4.5 years ago by Aaronquinlan ♦ 11k
110
votes
10
answers
50k
views
75 follow
10
answers
Tutorial: Piping With Samtools, Bwa And Bedtools
bedtools tutorial samtools unix bwa written 7.1 years ago by Ying W • 3.9k • updated 3.6 years ago by Yaseen Ladak • 20
9
votes
7
answers
4.0k
views
6 follow
7
answers
randomly shuffle BAM file
bedtools bam shuffle written 3.9 years ago by mparker2 • 20 • updated 2.1 years ago by skanterakis • 100
7
votes
6
answers
15k
views
8 follow
6
answers
How Can I Compare And Merge Bed Files
bedtools bed written 6.9 years ago by lyfsa • 30 • updated 6.1 years ago by beary.pooh • 10
34
votes
6
answers
10k
views
15 follow
6
answers
Annotating Genomic Intervals
bedtools annotation bioconductor R written 6.7 years ago by Stephen ♦ 2.7k • updated 6.7 years ago by Alex Reynolds ♦ 28k
17
votes
5
answers
13k
views
13 follow
5
answers
Discrepancy In Samtools Mpileup/Depth And Bedtools Genomecoveragebed Counts
bedtools samtools written 6.2 years ago by Surya Saha • 260 • updated 5.6 years ago by plafdesigns • 30
17
votes
5
answers
7.4k
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 6.1 years ago by Malachi Griffith ♦ 17k • updated 7 months ago by Paul • 1.3k
2
votes
5
answers
478
views
6 follow
5
answers
Expanding Genomic Coordinates Using Bedtools
bedtools bed tools genomc bed file written 12 months ago by gtasource • 20 • updated 11 months ago by Aaronquinlan ♦ 11k
6
votes
5
answers
532
views
5 follow
5
answers
Extract start coordinate from read 1 and end coordinate from read 2 of paired end reads.
bedtools unix written 9 months ago by rjobmc • 0 • updated 9 months ago by finswimmer ♦ 11k
7
votes
5
answers
256
views
5 follow
5
answers
Pulling out interval adjoining regions
bedtools bed bedops interval written 6 months ago by rbronste • 240 • updated 6 months ago by Alex Reynolds ♦ 28k
31
votes
4
answers
13k
views
15 follow
4
answers
Getting Unmapped Reads: Comparing Fastq To Bam
bedtools fastq bam samtools written 7.5 years ago by User 9996 • 800 • updated 7.5 years ago by brentp ♦ 23k
3
votes
4
answers
9.1k
views
5 follow
4
answers
Genomecoveragebed - Bedtool For Reporting Per Base Genome Coverage
bedtools coverage written 7.3 years ago by Varun Gupta • 1.1k • updated 5.4 years ago by hygine555 • 0
4
votes
4
answers
3.4k
views
6 follow
4
answers
Extract Only Paired-End Reads That Map A Specific Interval
bedtools extraction written 6.8 years ago by Nicolas Rosewick ♦ 7.7k • updated 8 months ago by pnatsidis • 0
5
votes
4
answers
4.6k
views
5 follow
4
answers
N Closest Genes To A Given Location
bedtools intersect written 6.7 years ago by dfernan • 650 • updated 6.7 years ago by Alex Reynolds ♦ 28k
20
votes
4
answers
7.9k
views
10 follow
4
answers
How To Extract Scores From Bedgraph File Using Bed Tools
bedtools written 6.4 years ago by biorepine • 1.4k • updated 3 months ago by brianpenghe • 20
30
votes
4
answers
24k
views
16 follow
4
answers
Converting Bam To Bedgraph For Viewing On Ucsc?
bedtools bed bam genome-browser ucsc written 6.3 years ago by user • 790 • updated 11 months ago by ATpoint ♦ 17k
25
votes
4
answers
21k
views
15 follow
4
answers
Bedtools Genomecoveragebed Usage : How To Create A Genome File?
bedtools written 6.1 years ago by komal.rathi • 3.4k • updated 8 months ago by Medhat ♦ 8.3k
5
votes
4
answers
1.9k
views
5 follow
4
answers
Tool For Binning Windowbed Output For K-Means Clustering
bedtools chip-seq clustering heatmap written 5.7 years ago by bede.portz • 490
1
vote
4
answers
4.3k
views
5 follow
4
answers
To Calculate The Exact Total Number Of Mapped Reads In Exome Regions
bedtools gatk ngs exome-sequencing coverage written 5.5 years ago by ivivek_ngs • 4.8k • updated 5.5 years ago by Wei Shi • 0
13
votes
4
answers
5.3k
views
5 follow
4
answers
Calculating GC content from BAM file by BED file
cg content bed bam bedtools written 4.5 years ago by Paul • 1.3k • updated 4.5 years ago by Aaronquinlan ♦ 11k
3
votes
4
answers
4.2k
views
4
answers
Intersect multiple bed and keep all fields
bedtools bed bedops written 3.9 years ago by user230613 • 280 • updated 19 months ago by ashmc • 0
1
vote
4
answers
787
views
4
answers
Generate bed co-ordinates other then given input bed file
bedfile bedtools written 3.1 years ago by Chirag Parsania • 1.4k • updated 3.1 years ago by A. Domingues • 2.1k
0
votes
4
answers
1.2k
views
4
answers
condition bedtools on name column
bedtools written 2.9 years ago by burnsro • 20 • updated 2.9 years ago by Alex Reynolds ♦ 28k
15
votes
4
answers
6.2k
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 2.3 years ago by tara.alpert • 30 • updated 4 weeks ago by iqra • 0
6
votes
4
answers
1.1k
views
4
answers
bedtools - getfasta: How to report both 'chrom:start-stop and' 'name' of sequence?
bedtools written 13 months ago by bi_Scholar • 0 • updated 13 months ago by Alex Reynolds ♦ 28k
7
votes
3
answers
7.1k
views
5 follow
3
answers
Convert .Txt Into Bed Files
bedtools comparison written 7.9 years ago by Bioscientist • 1.7k • updated 7.9 years ago by Swbarnes2 • 1.5k
81
votes
3
answers
44k
views
31 follow
3
answers
Bedtools Compare Multiple Bed Files?
bedtools intersect written 7.6 years ago by Bioscientist • 1.7k • updated 6.4 years ago by sjneph • 600
7
votes
3
answers
5.4k
views
5 follow
3
answers
Reporting The Bam Reads Overlapping A Set Of Intervals With Bedtools
bedtools bed next-gen bam sequencing written 7.6 years ago by User 9996 • 800 • updated 7.6 years ago by Alex Reynolds ♦ 28k
11
votes
3
answers
7.0k
views
5 follow
3
answers
Multi Thread Bedtools
bedtools parallel written 7.5 years ago by Nicolas Rosewick ♦ 7.7k • updated 4.9 years ago by Biostar ♦♦ 20
28
votes
3
answers
5.8k
views
7 follow
3
answers
Converting Sam Files To Bam Files - Reproduce Results Nature Paper: Transcriptome Genetics Using Second Generation Sequencing In A Caucasian Population
bedtools bam samtools sam written 7.4 years ago by Sander Timmer • 700 • updated 7.4 years ago by David Langenberger ♦ 8.9k
<prev • 499 results • page 1 of 17 • next >
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