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9
votes
1
answer
148
views
1
answer
Limiting interval sizes with awk
bedtools bed bedops awk interval written 6 weeks ago by rbronste • 290
2
votes
1
answer
147
views
1
answer
Bamtobed paired mate error
bedtools bed bedops bamtobed written 7 weeks ago by rbronste • 290 • updated 7 weeks ago by ATpoint ♦ 25k
3
votes
2
answers
249
views
2
answers
ggplot density plot across bed file
R bedops ggplot density plot bed written 7 weeks ago by rbronste • 290 • updated 7 weeks ago by Nicolas Rosewick ♦ 8.3k
3
votes
1
answer
98
views
1
answer
Filtering BED file for interval length
bedtools bed bedops written 7 weeks ago by rbronste • 290
0
votes
0
answers
135
views
0
answers
Gene names from mixed location BED file
bedtools bed bedops annotations written 3 months ago by rbronste • 290
4
votes
1
answer
269
views
1
answer
bedops bedmap operation in python
python bedops bedmap written 6 months ago by Uday Rangaswamy • 120 • updated 4 months ago by Biostar ♦♦ 20
7
votes
2
answers
282
views
2
answers
Combine .bed files and keep columns / headers
bedtools bedops bedmap written 5 months ago by fr • 110 • updated 5 months ago by ATpoint ♦ 25k
8
votes
1
answer
385
views
1
answer
How extract the longest overlap?
bedtools deeptools bedops intersect overlap written 8 months ago by star • 190 • updated 8 months ago by Biostar ♦♦ 20
7
votes
3
answers
2.5k
views
3
answers
Finding Chip Seq Overlaps with Bed files
bedtools chip-seq bedops bedmap written 4.0 years ago by morovatunc • 400
4
votes
1
answer
546
views
1
answer
BEDOPS bedmap tool usage
bedops sequence bedmap dna written 10 months ago by Uday Rangaswamy • 120 • updated 10 months ago by Alex Reynolds ♦ 29k
1
vote
1
answer
395
views
1
answer
BEDOPS installation on MAC
assembly bedops written 11 months ago by MK2000 • 30 • updated 11 months ago by Alex Reynolds ♦ 29k
7
votes
5
answers
317
views
5 follow
5
answers
Pulling out interval adjoining regions
bedtools bed bedops interval written 11 months ago by rbronste • 290 • updated 11 months ago by Alex Reynolds ♦ 29k
0
votes
0
answers
245
views
0
answers
Closest features sort by set distance
bedtools bed bedops intervals written 12 months ago by rbronste • 290
1
vote
1
answer
355
views
1
answer
Read depth interval comparison
read depth bed bedops bam bedtools written 12 months ago by rbronste • 290 • updated 12 months ago by Pierre Lindenbaum ♦ 124k
3
votes
2
answers
358
views
2
answers
Extending BED intervals
bedtools bed bedops interval written 12 months ago by rbronste • 290 • updated 12 months ago by Alex Reynolds ♦ 29k
1
vote
1
answer
329
views
1
answer
BEDOPS sort-bed BED_LINE_LEN question
bed bedops intervals sort-bed written 13 months ago by rbronste • 290
4
votes
2
answers
2.5k
views
2
answers
split bed file into several bed files where each region is separated of any other by N bases
bedtools bed bedops written 3.7 years ago by 14134125465346445 • 3.5k • updated 14 months ago by RamRS ♦ 24k
2
votes
1
answer
498
views
1
answer
Merge intervals between but NOT within 2 BED files
bedtools overlap merge bedops written 14 months ago by Anand Rao • 250 • updated 14 months ago by Alex Reynolds ♦ 29k
7
votes
2
answers
427
views
2
answers
Finding closest downstream gene including overlap 3' ends
bedtools bedops written 17 months ago by jfelds11 • 20
0
votes
0
answers
865
views
0
answers
Average PhastCon score using bedops
software error bedops starch written 3.0 years ago by Shaway • 10 • updated 18 months ago by Biostar ♦♦ 20
7
votes
2
answers
620
views
7 follow
2
answers
How to extract genes 10000 bp upstream and 1000 bp downstream of long non coding RNA?
bedtools bedops awk sed bash written 20 months ago by bk11 • 30 • updated 20 months ago by Alex Reynolds ♦ 29k
1
vote
2
answers
962
views
2
answers
Stats on the overlapping length within two bed files
bedtools genome bedops written 20 months ago by beanavarro85 • 0 • updated 20 months ago by Alex Reynolds ♦ 29k
2
votes
1
answer
430
views
1
answer
Bedops --element-of misses elements
bedops --element-of written 21 months ago by rs • 40 • updated 21 months ago by Alex Reynolds ♦ 29k
0
votes
1
answer
617
views
1
answer
How to rewrite convert2bed function from BEDOps using GNU parallel for batch processing?
bedops parallel convert2bed written 21 months ago by texaswhiskey1969 • 0 • updated 21 months ago by jean.elbers • 1.3k
0
votes
0
answers
513
views
0
answers
How to crop gff feature into pieces when an overlap is found
bedtools annotation gff bedops genome written 21 months ago by rimjhim.roy.ch • 70
3
votes
1
answer
979
views
1
answer
FIMO output to bed
bedtools fimo meme bedops written 22 months ago by rbronste • 290 • updated 22 months ago by YaGalbi • 1.4k
1
vote
1
answer
789
views
1
answer
bedops gff2bed error
bedops gff2bed written 22 months ago by varsha619 • 80 • updated 22 months ago by Alex Reynolds ♦ 29k
4
votes
1
answer
531
views
1
answer
bedops -u does not work properly
bed bedops intersect written 22 months ago by Ming Tang • 2.5k • updated 22 months ago by Alex Reynolds ♦ 29k
0
votes
2
answers
655
views
2
answers
VCF to BED conversion error in BEDOPS
vcf bed bedops written 23 months ago by Shab86 • 240 • updated 23 months ago by Alex Reynolds ♦ 29k
6
votes
1
answer
1.2k
views
1
answer
bedops vcf2bed core dump
bedops vcf2bed written 2.0 years ago by RamRS ♦ 24k
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