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<prev • 451 results • page 1 of 16 • next >
3
votes
2
answers
101
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2
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Edit score column in bed file
bedtools bed written 2 days ago by rf • 100 • updated 2 days ago by Alex Reynolds ♦ 28k
1
vote
3
answers
226
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3
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Convert indel list with [-/A] notation to VCF with adjacent base
vcf bed faidx convert written 3 months ago by Chris Miller ♦ 20k • updated 15 days ago by or.yaacov • 0
0
votes
0
answers
138
views
0
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GC Bias in Sequence Capture - Analysis & Quantification
bed sequence capture picard gcbias sequencing written 6 weeks ago by jnowacki • 70 • updated 15 days ago by Biostar ♦♦ 20
0
votes
0
answers
72
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0
answers
Graphing GC Bias in Sequence Capture
bed picard gcbias sequencing written 17 days ago by Jon17 • 10
0
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0
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102
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0
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Depth of coverage of Bed file regions?
bedtools bed coverage genome written 4 weeks ago by Jon17 • 10 • updated 4 weeks ago by h.mon ♦ 24k
3
votes
2
answers
115
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2
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Modify BED with poliregions
bed bash awk written 5 weeks ago by v82masae • 120 • updated 5 weeks ago by Pierre Lindenbaum ♦ 119k
3
votes
1
answer
171
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1
answer
Extract coverage from each nucleotide position of a genome in a bam file
bed bam coverage written 5 weeks ago by MAPK • 1.4k
7
votes
1
answer
251
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6 follow
1
answer
How to report genomic intervals essentailly overlapping in all files?
bedtools bed bam written 6 weeks ago by Vijay Lakhujani ♦ 4.0k
11
votes
2
answers
4.1k
views
5 follow
2
answers
How to subset a bed or gtf file to some genes of interest?
gtf bed gene genome written 4.0 years ago by cyril-cros • 890 • updated 6 weeks ago by dimitrischat • 60
4
votes
1
answer
260
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5 follow
1
answer
Why the list of genes in UCSC "knownGene" table is strikingly different than the list of genes in UCSC "known canonical" table?
bed ucsc tablebrowser hg19 written 6 weeks ago by Vijay Lakhujani ♦ 4.0k
17
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2
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5.5k
views
7 follow
2
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Bed File Format
bed next-gen conversion format written 5.2 years ago by freddy • 40 • updated 6 weeks ago by nishadahiya • 0
12
votes
2
answers
313
views
5 follow
2
answers
Getting these files from different parts of genome
genome bed wgs snp R written 8 weeks ago by F • 3.4k
2
votes
3
answers
188
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3
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Is there any way to merge intervals based on a minimum overlap?
bed merge written 8 weeks ago by VicGB • 0 • updated 8 weeks ago by Alex Reynolds ♦ 28k
12
votes
3
answers
328
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7 follow
3
answers
Fast way to return genomic regions for 10,000 SNPs in rsID
bed rsid snp written 9 weeks ago by Shicheng Guo • 7.4k
0
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1
answer
2.6k
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1
answer
How do I calculate the total read depth and allele frequency using just the target bed file and aligned bam
bed frequency allele mpileup bam written 3.8 years ago by bobrowdy123 • 0 • updated 9 weeks ago by Biostar ♦♦ 20
2
votes
0
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244
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5 follow
0
answers
GFF3 to BED using Python
gff3 bed python written 9 weeks ago by onemore100iq • 20
0
votes
0
answers
113
views
0
answers
Convert regions from genomic coordinates to transcript coordinates
genome bed transcript written 10 weeks ago by Sergio Martínez Cuesta • 60
6
votes
1
answer
195
views
1
answer
Tool for rendering quick PNG/SVG/etc. from a single BED12 element?
gene bed visualization bed12 written 10 weeks ago by Alex Reynolds ♦ 28k • updated 10 weeks ago by Pierre Lindenbaum ♦ 119k
4
votes
3
answers
222
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3
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Visualizing CNV data based from bed or bedgraph format
R igv bedgraph cnv bed written 10 weeks ago by sm.hashemin • 60
3
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0
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243
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0
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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)
bedtools bed bedtools closest closestbed prerna tutorial written 11 weeks ago by linuxborg2 • 0 • updated 11 weeks ago by RamRS ♦ 21k
0
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0
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188
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0
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Get positions from FASTA alignment in bed format
fasta bed alignment bam written 11 weeks ago by kalahari • 0
1
vote
1
answer
158
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1
answer
Find the 3' utrs, 5'utrs and their counts from bam files
bedtools bed bam utr ucsc written 12 weeks ago by ilovesuperheroes1993 • 0 • updated 12 weeks ago by Gautier Richard • 270
0
votes
0
answers
220
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0
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Visualize BEDPE file
bed hic igv written 3 months ago by ste.lu • 40
4
votes
4
answers
1.1k
views
6 follow
4
answers
bigWig to bed for regions above/below threshold
bed bigwig written 17 months ago by skanterakis • 100 • updated 4 months ago by oriolebaltimore • 60
1
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0
answers
215
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0
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Pindel output to BED file
sv bed format cnv pindel written 4 months ago by znl207 • 10 • updated 4 months ago by Pierre Lindenbaum ♦ 119k
3
votes
1
answer
209
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1
answer
Filter reads with most frequent mapping coordinates from BED
bed next-gen radseq assembly written 4 months ago by miguelcamachosanchez • 0 • updated 4 months ago by ATpoint ♦ 15k
7
votes
5
answers
231
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5 follow
5
answers
Pulling out interval adjoining regions
bedtools bed bedops interval written 4 months ago by rbronste • 230 • updated 4 months ago by Alex Reynolds ♦ 28k
0
votes
0
answers
225
views
0
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How to divide a chromosome into arms and center?
chromsome arm coordinates center bed written 4 months ago by Zee_S • 20
0
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0
answers
178
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0
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Closest features sort by set distance
bedtools bed bedops intervals written 5 months ago by rbronste • 230
0
votes
1
answer
206
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1
answer
Read depth interval comparison
read depth bed bedops bam bedtools written 5 months ago by rbronste • 230 • updated 5 months ago by Pierre Lindenbaum ♦ 119k
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