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'Error: Unable to open file test1.bed. Exiting' , Bedtools help
bedtools .bed mergebed written 5 days ago by reece • 0 • updated 5 days ago by ATpoint ♦ 10k
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2
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110
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bedtools complement error
bedtools written 6 days ago by bk11 • 30 • updated 6 days ago by Alex Reynolds ♦ 26k
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1
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84
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1
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bedtools multicov - tab-delimited bam files?
bedtools tab-delimited multicov error message written 10 days ago by susibing • 20
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66
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Expression data from cufflinks merged gtf
bedtools gtf stringtie rna-seq written 9 days ago by ddowlin • 70
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115
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bedtools intersect with match on name column
bedtools intersectbed written 10 days ago by corend • 70
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Pulling out interval adjoining regions
bedtools bed bedops interval written 13 days ago by rbronste • 230 • updated 12 days ago by Alex Reynolds ♦ 26k
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Closest features sort by set distance
bedtools bed bedops intervals written 22 days ago by rbronste • 230
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87
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Read depth interval comparison
read depth bed bedops bam bedtools written 25 days ago by rbronste • 230 • updated 25 days ago by Pierre Lindenbaum ♦ 115k
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109
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Extending BED intervals
bedtools bed bedops interval written 26 days ago by rbronste • 230 • updated 26 days ago by Alex Reynolds ♦ 26k
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142
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find coverage of specific exomes from a bam file
bedtools genomecov bam coverage bed written 4 weeks ago by lait • 120 • updated 4 weeks ago by Pierre Lindenbaum ♦ 115k
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coverage of a SNP site?
bedtools ngs ase coverage snp written 4 weeks ago by Susmita Mandal • 0 • updated 4 weeks ago by Kevin Blighe ♦ 33k
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1
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176
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Bedtools Error: Type checker found wrong number of fields while tokenizing data line.
bedtools written 5 weeks ago by User 7754 • 170 • updated 5 weeks ago by Alex Reynolds ♦ 26k
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What Is The Fastest Method To Determine The Number Of Positions In A Bam File With >N Coverage?
bedtools depth-of-coverage bam samtools coverage written 5.6 years ago by Malachi Griffith ♦ 17k • updated 5 weeks ago by Paul • 1.2k
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Using BedTools to look at unique bed intervals between two files
bedtools written 5 weeks ago by a.rex • 170 • updated 5 weeks ago by Alex Reynolds ♦ 26k
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639
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overlap BED files, but account for region name
overlap bed bedtools written 18 months ago by igor ♦ 7.1k • updated 6 weeks ago by Biostar ♦♦ 20
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143
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1
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GFF file multiple features for 1 gene region, how to collapse into 1?
bedtools gff rna-seq written 7 weeks ago by YOUSEUFS • 10 • updated 7 weeks ago by Carambakaracho • 620
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Extracting Flanking Regions using Biopython
bedtools biopython written 7 weeks ago by LindoNkambule • 0 • updated 7 weeks ago by jrj.healey ♦ 9.1k
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Installing Bedtools with Cygwin fails.
bedtools cygwin written 7 weeks ago by omer.k • 20
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7 follow
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Bedtools intersect alternatives available
bedtools written 7 weeks ago by Jeffin Rockey • 980 • updated 7 weeks ago by Alex Reynolds ♦ 26k
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234
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6 follow
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Error using bedtools "intersect" command
software error bedtools written 7 weeks ago by hila • 0 • updated 7 weeks ago by Pierre Lindenbaum ♦ 115k
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194
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How to get regions with mapped reads
bedtools bed file rna-seq bam file written 8 weeks ago by nanoide • 10 • updated 8 weeks ago by RamRS ♦ 19k
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Bedtools Intersect with files containing some alternative information
bedtools written 3.6 years ago by christylynn002 • 0 • updated 8 weeks ago by Biostar ♦♦ 20
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Extract Only Paired-End Reads That Map A Specific Interval
bedtools extraction written 6.3 years ago by Nicolas Rosewick ♦ 7.0k • updated 8 weeks ago by pnatsidis • 0
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intersectBed a gtf file with a vcf file
bedtools intersectbed snp written 8 weeks ago by Susmita Mandal • 0
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Plot average expression profile from one bed file across overlapping regions from another bed file in R
bedtools bed R granges overlap written 9 weeks ago by newscient • 10 • updated 8 weeks ago by Nicolas Rosewick ♦ 7.0k
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Bedtools Genomecoveragebed Usage : How To Create A Genome File?
bedtools written 5.6 years ago by komal.rathi • 3.3k • updated 9 weeks ago by Medhat ♦ 8.0k
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Is BED file generated by bametobed sorted ?
bedtools ngs bamtobed coverage sequencing written 9 weeks ago by pacman • 50 • updated 9 weeks ago by Alex Reynolds ♦ 26k
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Single Cell Sequencing Quality
bedtools samtools single cell written 9 weeks ago by hshah • 20 • updated 9 weeks ago by RamRS ♦ 19k
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i cant sort bed file. Error in bedtools merge.
bedtools next-gen written 2.8 years ago by unique379 • 50 • updated 11 weeks ago by RamRS ♦ 19k
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split bed file into several bed files where each region is separated of any other by N bases
bedtools bed bedops written 2.8 years ago by 14134125465346445 • 3.4k • updated 12 weeks ago by RamRS ♦ 19k
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