Results for "bed"

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  • Genome Browsers

    Genome Browser is the platform/database used for searching and retreiving sequences and annotation of genomes belong to various eukaryotes, prokaryotes, etc. Following are the weblink for different available browsers: http://www.ensembl.org/index.html http://ensemblgenomes.org/ http://genome....

    Tags: Genome Browser, Organism, Plant, Animal, Bacteria, fungi, Genome Sequence, DNA, Sequencing, Annotation, SNP, gff, gtf, gff3, vcf, bed

    3878 days ago

  • make a window of 60k of bed file. $ bedtools makewindows -g genome -w 60000 > 60K.windows.bed #bed #bin #window

    Tags: bed, bin, window

    1905 days ago

  • Merge overlapping bed file https://bedtools.readthedocs.io/en/latest/content/tools/merge.html #bed #merge #overlapping

    Tags: bed, merge, overlapping

    1905 days ago

  • Get the fasta sequence of the coordinates http://bedtools.readthedocs.io/en/latest/content/tools/getfasta.html #Fasta #Bed #Coordinates #Bedtools

    Tags: Fasta, Bed, Coordinates, Bedtools

    2578 days ago

  • Get the sequences using coordinates in bed file. $ bedtools getfasta -fi input_file.fa -bed regions_file.bed #Bed #Extract #Sequence #bedtools

    Tags: Bed, Extract, Sequence, bedtools

    2207 days ago

  • BAM2BED conversion bamToBed -i overall_exp_genome_rep1.bam > alignment.bed #Bed #bam #bamToBed #convert

    Tags: Bed, bam, bamToBed, convert

    1989 days ago

  • Enrichr: a comprehensive gene set enrichment analysis

    Enrichment analysis is a popular method for analyzing gene sets generated by genome-wide experiments. Here we present a significant update to one of the tools in this domain called Enrichr. Enrichr currently contains a large collection of diverse gene set libraries available for analysis and down...

    Tags: Bioinformatics, Analysis, Enrichment, Enrichr, Web, Server, GO, Pathway, Genes, BED, Ontologies, Drug, Cell, Disease

    2528 days ago

  • BEDOPS v2.4.26: high-performance genomic feature operations

    BEDOPS v2.4.26 is a suite of tools to address common questions raised in genomic studies — mostly with regard to overlap and proximity relationships between data sets. It aims to be scalable and flexible, facilitating the efficient and accurate analysis and management of large-scale genomic...

    Tags: BEDOPS, high-performance, genomic, feature, operations, NGS, BED

    2482 days ago