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<prev • 74 results • page 1 of 3 • next >
2
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2
answers
44
views
2
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Bedtools intersect/bcftools annotate dublicate the SNPs
bedtools bcftools snp written 19 hours ago by User000 • 280 • updated 18 hours ago by Carlo Yague • 4.9k
0
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0
answers
73
views
0
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Bedtools intersect vcf and bed files
bedtools bcftools sam written 8 days ago by User000 • 280
3
votes
1
answer
74
views
1
answer
Extract SNPs from VCF file located in genes or flanking +/- 5Kbp on GFF file
vcf bedtools gff written 16 days ago by User000 • 280 • updated 15 days ago by jared.andrews07 ♦ 5.0k
3
votes
1
answer
1.0k
views
1
answer
bedtools, merge function: avoid merging intervals if separated by a single base
bedtools merge single_base_separation written 13 months ago by gabri • 50 • updated 25 days ago by Ekalavya • 10
1
vote
0
answers
77
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0
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about bamToBed and the reads that align to multiple genome coordinates
bedtools written 4 weeks ago by Bogdan • 950 • updated 4 weeks ago by RamRS ♦ 25k
0
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0
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92
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0
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Bedtools option suggestion
bedtools coregenes genes written 4 weeks ago by K.Gee • 30
0
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0
answers
80
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0
answers
Merge regions in a BED but only if they share the same value (copy number) in a column
bedtools bedops copy number written 4 weeks ago by Luca Beltrame • 220 • updated 4 weeks ago by ATpoint ♦ 30k
6
votes
1
answer
1.5k
views
1
answer
Alignment with STAR produces unique bam files, but identical output from bedtools multicov
bedtools samtools star written 3.8 years ago by dec986 • 210 • updated 5 weeks ago by Biostar ♦♦ 20
4
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0
answers
703
views
0
answers
Tutorial: Using Bedtools Closest (closestBed) to make distance histograms of protein binding frequency near all types of pre-RNA junctions (e.g. exon-intron and intron-exon)
prerna bedtools tutorial bedtools closest closestbed written 13 months ago by linuxborg2 • 0
2
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1
answer
136
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1
answer
BEDTools coverage is giving empty output when computing coverage of bam vs bed
exome bedtools wes coverage written 6 weeks ago by DrDoom • 10
0
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2
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123
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2
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error reading bed files for bedtools intersect
bedtools intersect written 6 weeks ago by rthapa • 0 • updated 6 weeks ago by Pierre Lindenbaum ♦ 126k
11
votes
2
answers
6.7k
views
2
answers
Issue with naming convention in bedtools
bedtools sam written 4.9 years ago by A. Domingues • 2.2k • updated 6 weeks ago by Biostar ♦♦ 20
0
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1
answer
185
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1
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Using Bedtools coverage to find BAM coverage?
bedtools written 3 months ago by vctrm67 • 10 • updated 8 weeks ago by hahn5Thomas • 0
0
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0
answers
121
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0
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Bedtools intersect with header file
bedtools written 12 weeks ago by irfanwustl • 0
1
vote
0
answers
119
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0
answers
Combining two BED files based on shared criteria
bedtools bed bedops interval written 3 months ago by rbronste • 340
0
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1
answer
162
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1
answer
intersecting two GFF3 missing data from the second file
bedtools annotation genome written 3 months ago by Ric • 290
2
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2
answers
158
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2
answers
Using bedtools intersect on multiple bed files to retain peaks in 2 out of 3 files
bedtools intersect bed file written 3 months ago by camerond • 150
2
votes
1
answer
2.9k
views
1
answer
bedtools 2.25 vs bedtools2.20 coverageBed output not consistent
bedtools ngs written 4.4 years ago by bioguy24 • 190 • updated 3 months ago by Biostar ♦♦ 20
7
votes
1
answer
143
views
1
answer
Couting number of similar reads in sam file and output in bed file?
bedtools samtools rna-seq written 3 months ago by bobbyle0210 • 10 • updated 3 months ago by Carlo Yague • 4.9k
2
votes
1
answer
131
views
1
answer
bedtools not working properly
bedtools fasta alignment written 3 months ago by wstla27 • 0 • updated 3 months ago by Amar • 640
29
votes
5
answers
24k
views
17 follow
5
answers
Bedtools Genomecoveragebed Usage : How To Create A Genome File?
bedtools written 6.8 years ago by komal.rathi • 3.5k • updated 4 months ago by Phoenix Mu • 20
0
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1
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380
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1
answer
Bedtools problem : It looks as though you have less than 3 columns at line: 1. Are you sure your files are tab-delimited
bedtools bioinformatics fasta written 4 months ago by Tomm • 0 • updated 4 months ago by genomax ♦ 78k
0
votes
1
answer
108
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1
answer
bedtools genomecov per-base report in igv
bedtools per-base report igv written 4 months ago by pyKey • 50 • updated 4 months ago by ATpoint ♦ 30k
2
votes
1
answer
364
views
1
answer
bedtools sort -faidx in CWL
bedtools cwl sort written 8 months ago by dami • 10 • updated 4 months ago by kaushik.ghose • 60
0
votes
1
answer
160
views
1
answer
Counting starting and ending positions of reads in reference genome
bedtools ngs bam sam rna-seq written 4 months ago by bobbyle0210 • 10 • updated 4 months ago by Pierre Lindenbaum ♦ 126k
0
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1
answer
301
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1
answer
Error when installing bedtools
bedtools gcc g++ rna-seq written 4 months ago by bobbyle0210 • 10
9
votes
1
answer
209
views
1
answer
Limiting interval sizes with awk
bedtools bed bedops awk interval written 4 months ago by rbronste • 340
2
votes
1
answer
238
views
1
answer
Bamtobed paired mate error
bedtools bed bedops bamtobed written 5 months ago by rbronste • 340 • updated 5 months ago by ATpoint ♦ 30k
4
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1
answer
220
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1
answer
Filtering BED file for interval length
bedtools bed bedops written 5 months ago by rbronste • 340
0
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0
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945
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0
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Simple way to extract or mask specific sites only from multi-FASTA alignments
bedtools fasta snp seqtk written 2.5 years ago by Kame • 20 • updated 5 months ago by Biostar ♦♦ 20
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