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<prev • 434 results • page 1 of 15 • next >
0
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1
answer
69
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1
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Find the 3' utrs, 5'utrs and their counts from bam files
bedtools bed bam utr ucsc written 1 day ago by ilovesuperheroes1993 • 0 • updated 1 day ago by Gautier Richard • 120
0
votes
0
answers
66
views
0
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Visualize BEDPE file
bed hic igv written 4 days ago by ste.lu • 40
1
vote
2
answers
123
views
2
answers
Convert indel list with [-/A] notation to VCF with adjacent base
vcf bed faidx convert written 19 days ago by Chris Miller ♦ 20k • updated 18 days ago by finswimmer ♦ 9.0k
4
votes
4
answers
848
views
6 follow
4
answers
bigWig to bed for regions above/below threshold
bed bigwig written 14 months ago by skanterakis • 100 • updated 5 weeks ago by oriolebaltimore • 60
1
vote
0
answers
110
views
0
answers
Pindel output to BED file
sv bed format cnv pindel written 5 weeks ago by znl207 • 10 • updated 5 weeks ago by Pierre Lindenbaum ♦ 116k
3
votes
1
answer
159
views
1
answer
Filter reads with most frequent mapping coordinates from BED
bed next-gen radseq assembly written 5 weeks ago by miguelcamachosanchez • 0 • updated 5 weeks ago by ATpoint ♦ 12k
7
votes
5
answers
175
views
5 follow
5
answers
Pulling out interval adjoining regions
bedtools bed bedops interval written 8 weeks ago by rbronste • 230 • updated 8 weeks ago by Alex Reynolds ♦ 27k
0
votes
0
answers
138
views
0
answers
How to divide a chromosome into arms and center?
chromsome arm coordinates center bed written 8 weeks ago by Zee_S • 20
0
votes
0
answers
132
views
0
answers
Closest features sort by set distance
bedtools bed bedops intervals written 9 weeks ago by rbronste • 230
0
votes
1
answer
130
views
1
answer
Read depth interval comparison
read depth bed bedops bam bedtools written 9 weeks ago by rbronste • 230 • updated 9 weeks ago by Pierre Lindenbaum ♦ 116k
3
votes
2
answers
149
views
2
answers
Extending BED intervals
bedtools bed bedops interval written 10 weeks ago by rbronste • 230 • updated 10 weeks ago by Alex Reynolds ♦ 27k
6
votes
2
answers
206
views
2
answers
find coverage of specific exomes from a bam file
bedtools genomecov bam coverage bed written 10 weeks ago by lait • 120 • updated 10 weeks ago by Pierre Lindenbaum ♦ 116k
1
vote
1
answer
103
views
1
answer
Help when using UCSC's table browser
vcf bed ucsc-table-browser written 11 weeks ago by BMK_83 • 0
3
votes
1
answer
132
views
1
answer
Querying Gemini database by using genomic coordinates from a bed file.
gemini bed database query written 11 weeks ago by eDNAuRNA • 0 • updated 11 weeks ago by finswimmer ♦ 9.0k
0
votes
1
answer
161
views
1
answer
Find unique non overlapping intervals between two files?
bed written 11 weeks ago by a.rex • 170 • updated 11 weeks ago by harold.smith.tarheel • 4.2k
3
votes
1
answer
1.2k
views
1
answer
Convert bed12 to GFF
bed gff bed12 written 23 months ago by cmdcolin • 1.1k
1
vote
1
answer
669
views
1
answer
overlap BED files, but account for region name
overlap bed bedtools written 19 months ago by igor ♦ 7.2k • updated 12 weeks ago by Biostar ♦♦ 20
2
votes
2
answers
221
views
2
answers
Protein coding mm10 refseq bed
bed refseq mm10 written 3 months ago by rbronste • 230 • updated 12 weeks ago by vkkodali • 870
5
votes
1
answer
184
views
1
answer
Parsing AME tsv file
ame tsv meme motif bed written 3 months ago by rbronste • 230
2
votes
1
answer
354
views
9 follow
1
answer
How can I make a .bed file from my fasta?
fasta bed mapping bowtie2 written 3 months ago by jaqx008 • 40
1
vote
1
answer
129
views
1
answer
BEDOPS sort-bed BED_LINE_LEN question
bed bedops intervals sort-bed written 3 months ago by rbronste • 230
4
votes
3
answers
357
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3
answers
Plot average expression profile from one bed file across overlapping regions from another bed file in R
bedtools bed R granges overlap written 3 months ago by newscient • 10 • updated 3 months ago by Nicolas Rosewick ♦ 7.2k
0
votes
1
answer
510
views
1
answer
How to extract sequence message from SAM?
bed sam sequencing written 20 months ago by Jeason Rad • 30 • updated 3 months ago by Biostar ♦♦ 20
1
vote
1
answer
1.3k
views
1
answer
Bedtools with name and full header
bed written 2.9 years ago by bharata1803 • 390 • updated 3 months ago by Biostar ♦♦ 20
2
votes
1
answer
1.1k
views
1
answer
[Resolved] Adding a unique ID column to a bed file
data managment bed written 3.2 years ago by giroudpaul • 50 • updated 3 months ago by Biostar ♦♦ 20
2
votes
2
answers
311
views
2
answers
bed file with indels and SNVs
bed snp written 3 months ago by joselu • 60
7
votes
4
answers
1.5k
views
4
answers
How to identify consecutive (adjacent) genomic intervals
latest bed genomic intervals written 2.9 years ago by A. Domingues • 1.8k • updated 4 months ago by RamRS ♦ 20k
4
votes
2
answers
1.8k
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 2.9 years ago by 14134125465346445 • 3.4k • updated 4 months ago by RamRS ♦ 20k
3
votes
1
answer
150
views
1
answer
How do i extract rows from a bedfile that have a certain bedscore?
bed parse written 4 months ago by a.rex • 170 • updated 4 months ago by Alex Reynolds ♦ 27k
0
votes
2
answers
535
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2
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bedtools closest - result for only the first query
bedtools software error closest bed written 10 months ago by yjyj • 0 • updated 4 months ago by Biostar ♦♦ 20
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