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Quick way to annotate a target exome BED file with gene name information
annotate bed exon gene written 3 days ago by lakhujanivijay ♦ 4.8k
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What Agilent Interval Files (.Bed) Should I Use For Exome Variant Calling With Gatk?
agilent bed gatk written 6.3 years ago by newDNASeqer • 670 • updated 9 days ago by Karma • 270
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2
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4.5k
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2
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Easy Way To Map Cds Coordinates To Genomic Coordinates
cds gff coordinates mapping bed written 8.9 years ago by Alper Yilmaz • 90 • updated 26 days ago by Shicheng Guo • 8.1k
3
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148
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How to bring all reads to the same length? Any tool?
bed tool read length written 4 weeks ago by Ankit • 130
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1
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1
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plink mergelist put many individuals into same binary file set
bed merge plink written 4.8 years ago by gulcek • 10 • updated 6 weeks ago by Dawn • 0
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70
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Merge 4 CoreExome chip arrays files keeping only the overlapping/common variants
genome bed merge plink snp written 7 weeks ago by fondan • 0
2
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1
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139
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1
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Mimic WES on WGS data + A comprehensive list of coding regions in the most biologically relevant transcripts
vcf bed bam canonical transcript written 7 weeks ago by lamteva.vera • 170
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123
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How to create .BED file for HIV genes?
bed virus genome written 11 weeks ago by istloui1 • 0 • updated 11 weeks ago by Medhat ♦ 8.6k
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119
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Combining two BED files based on shared criteria
bedtools bed bedops interval written 3 months ago by rbronste • 340
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2
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309
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2
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Graphing GC Bias in Sequence Capture
bed picard gcbias sequencing written 11 months ago by Jon17 • 10 • updated 3 months ago by Chao Tang • 20
3
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2
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197
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2
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Can I split a bed file into 1000bp bins and add up my read numbers?
genome bed alignment rna-seq written 3 months ago by James Clark • 0 • updated 3 months ago by Jorge Amigo ♦ 11k
57
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3
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24k
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36 follow
3
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How To Get Bed File Containing Exons Of Canonical Transcripts And Their Corresponding Gene Symbols
bed biomart transcript ucsc written 6.0 years ago by pristanna • 570 • updated 3 months ago by knsvar • 10
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5
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14 follow
5
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How Do I Convert Fa Files To Bed Format?
fasta bed written 8.2 years ago by Keziah • 70 • updated 4 months ago by john.major • 0
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1
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198
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1
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Visualize short nucleotide sequences and some ranges on top
bed gff visualization written 4 months ago by mschmid • 150 • updated 4 months ago by bernatgel • 2.5k
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1
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980
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1
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How to get a VCF file for all variants in a specific gene and specific exon?
vcf bed snp written 3.4 years ago by natarajan.padmaja • 20 • updated 4 months ago by DNAngel • 40
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136
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0
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BED to HDF5 in Python. Simple Script?
python hdf5 bed written 4 months ago by QVINTVS_FABIVS_MAXIMVS • 2.3k
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1
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159
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1
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Merge overlapping intervals in a bed file containing different chromosomes
bed merge script written 4 months ago by dzisis1986 • 20 • updated 4 months ago by Pierre Lindenbaum ♦ 126k
9
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1
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209
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1
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Limiting interval sizes with awk
bedtools bed bedops awk interval written 4 months ago by rbronste • 340
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1
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259
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1
answer
gene_bodyCoverage.py No usable output...why?
genebody_coverage.py bed gff2bed rna-seq written 5 months ago by crcarroll • 10
2
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1
answer
238
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1
answer
Bamtobed paired mate error
bedtools bed bedops bamtobed written 5 months ago by rbronste • 340 • updated 5 months ago by ATpoint ♦ 30k
3
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2
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349
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2
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ggplot density plot across bed file
R bedops ggplot density plot bed written 5 months ago by rbronste • 340 • updated 5 months ago by Nicolas Rosewick ♦ 8.7k
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1
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219
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1
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Filtering BED file for interval length
bedtools bed bedops written 5 months ago by rbronste • 340
2
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0
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845
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0
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Understanding columns of ChIP-Seq BED file format
genome bed chip-seq sequencing written 5 months ago by singram • 0
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229
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0
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Problems with calculating gcskew functions in python
fasta python functions bed written 6 months ago by H.Chloe • 20
32
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6
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25k
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19 follow
6
answers
Converting Bam To Bedgraph For Viewing On Ucsc?
bedtools bed bam genome-browser ucsc written 7.0 years ago by user • 840 • updated 6 months ago by ATpoint ♦ 30k
4
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1
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244
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1
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Extracting reads mapping to CDS regions but not the first 45bp after ATG
bed bam rna-seq written 6 months ago by Adrian Pelin • 2.3k • updated 6 months ago by Pierre Lindenbaum ♦ 126k
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0
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178
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Gene names from mixed location BED file
bedtools bed bedops annotations written 6 months ago by rbronste • 340
41
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2
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15k
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15 follow
2
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Looking For A Way To Count Total Length Of Regions Of Bed File
bed written 6.9 years ago by Yunfei Li • 310 • updated 7 months ago by demolidd77 • 40
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1
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1.4k
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1
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Consensus of multiple BED files
bedtools bed written 3.4 years ago by bruce.moran • 670 • updated 7 months ago by Biostar ♦♦ 20
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What are the 4th and 5th column in ENCODE DNase enrichment files?
bed dnase encode chromatin accessibility written 7 months ago by hivemind • 10
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