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<prev • 448 results • page 1 of 15 • next >
3
votes
2
answers
86
views
2
answers
Modify BED with poliregions
bed bash awk written 2 days ago by v82masae • 120 • updated 2 days ago by Pierre Lindenbaum ♦ 117k
3
votes
1
answer
128
views
1
answer
Extract coverage from each nucleotide position of a genome in a bam file
bed bam coverage written 6 days ago by MAPK • 1.4k
7
votes
1
answer
190
views
6 follow
1
answer
How to report genomic intervals essentailly overlapping in all files?
bedtools bed bam written 10 days ago by bioExplorer ♦ 3.7k
11
votes
2
answers
3.9k
views
5 follow
2
answers
How to subset a bed or gtf file to some genes of interest?
gtf bed gene genome written 3.9 years ago by cyril-cros • 870 • updated 10 days ago by dimitrischat • 60
0
votes
0
answers
72
views
0
answers
GC Bias in Sequence Capture - Analysis & Quantification
bed sequence capture picard gcbias sequencing written 10 days ago by jnowacki • 70
4
votes
1
answer
191
views
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 16 days ago by bioExplorer ♦ 3.7k
17
votes
2
answers
5.4k
views
7 follow
2
answers
Bed File Format
bed next-gen conversion format written 5.1 years ago by freddy • 40 • updated 14 days ago by nishadahiya • 0
12
votes
2
answers
275
views
5 follow
2
answers
Getting these files from different parts of genome
genome bed wgs snp R written 25 days ago by F • 3.4k
2
votes
3
answers
155
views
3
answers
Is there any way to merge intervals based on a minimum overlap?
bed merge written 26 days ago by VicGB • 0 • updated 26 days ago by Alex Reynolds ♦ 27k
12
votes
3
answers
262
views
7 follow
3
answers
Fast way to return genomic regions for 10,000 SNPs in rsID
bed rsid snp written 4 weeks ago by Shicheng Guo • 7.4k
0
votes
1
answer
2.6k
views
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 3.7 years ago by bobrowdy123 • 0 • updated 4 weeks ago by Biostar ♦♦ 20
2
votes
0
answers
195
views
5 follow
0
answers
GFF3 to BED using Python
gff3 bed python written 5 weeks ago by onemore100iq • 20
0
votes
0
answers
87
views
0
answers
Convert regions from genomic coordinates to transcript coordinates
genome bed transcript written 5 weeks ago by Sergio Martínez Cuesta • 60
6
votes
1
answer
173
views
1
answer
Tool for rendering quick PNG/SVG/etc. from a single BED12 element?
gene bed visualization bed12 written 5 weeks ago by Alex Reynolds ♦ 27k • updated 5 weeks ago by Pierre Lindenbaum ♦ 117k
3
votes
3
answers
171
views
3
answers
Visualizing CNV data based from bed or bedgraph format
R igv bedgraph cnv bed written 5 weeks ago by sm.hashemin • 60
3
votes
0
answers
184
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)
bedtools bed bedtools closest closestbed prerna tutorial written 7 weeks ago by linuxborg2 • 0 • updated 7 weeks ago by RamRS ♦ 20k
0
votes
0
answers
168
views
0
answers
Get positions from FASTA alignment in bed format
fasta bed alignment bam written 7 weeks ago by kalahari • 0
1
vote
1
answer
128
views
1
answer
Find the 3' utrs, 5'utrs and their counts from bam files
bedtools bed bam utr ucsc written 7 weeks ago by ilovesuperheroes1993 • 0 • updated 7 weeks ago by Gautier Richard • 260
0
votes
0
answers
161
views
0
answers
Visualize BEDPE file
bed hic igv written 8 weeks ago by ste.lu • 40
1
vote
2
answers
172
views
2
answers
Convert indel list with [-/A] notation to VCF with adjacent base
vcf bed faidx convert written 10 weeks ago by Chris Miller ♦ 20k • updated 10 weeks ago by finswimmer ♦ 11k
4
votes
4
answers
997
views
6 follow
4
answers
bigWig to bed for regions above/below threshold
bed bigwig written 16 months ago by skanterakis • 100 • updated 3 months ago by oriolebaltimore • 60
1
vote
0
answers
167
views
0
answers
Pindel output to BED file
sv bed format cnv pindel written 3 months ago by znl207 • 10 • updated 3 months ago by Pierre Lindenbaum ♦ 117k
3
votes
1
answer
191
views
1
answer
Filter reads with most frequent mapping coordinates from BED
bed next-gen radseq assembly written 3 months ago by miguelcamachosanchez • 0 • updated 3 months ago by ATpoint ♦ 14k
7
votes
5
answers
214
views
5 follow
5
answers
Pulling out interval adjoining regions
bedtools bed bedops interval written 3 months ago by rbronste • 230 • updated 3 months ago by Alex Reynolds ♦ 27k
0
votes
0
answers
196
views
0
answers
How to divide a chromosome into arms and center?
chromsome arm coordinates center bed written 3 months ago by Zee_S • 20
0
votes
0
answers
165
views
0
answers
Closest features sort by set distance
bedtools bed bedops intervals written 4 months ago by rbronste • 230
0
votes
1
answer
177
views
1
answer
Read depth interval comparison
read depth bed bedops bam bedtools written 4 months ago by rbronste • 230 • updated 4 months ago by Pierre Lindenbaum ♦ 117k
3
votes
2
answers
195
views
2
answers
Extending BED intervals
bedtools bed bedops interval written 4 months ago by rbronste • 230 • updated 4 months ago by Alex Reynolds ♦ 27k
6
votes
2
answers
283
views
2
answers
find coverage of specific exomes from a bam file
bedtools genomecov bam coverage bed written 4 months ago by lait • 130 • updated 4 months ago by Pierre Lindenbaum ♦ 117k
1
vote
1
answer
140
views
1
answer
Help when using UCSC's table browser
vcf bed ucsc-table-browser written 4 months ago by BMK_83 • 0
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