Showing 14 of 14 results
Software
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Signal generation from stranded alignments for long-RNA-seq ENCODE uniform processing pipeline.Software type: file format conversionSoftware
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Signal generation for small-RNA-seq ENCODE uniform processing pipeline.Software type: file format conversionSoftware
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Signal generation for Rampage ENCODE uniform processing pipeline.Software type: file format conversionSoftware
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This is a custom script to convert the results of Nanostring Nsolver from mirbase identifiers to genomic coordinates in BED and bigBED format.Software type: file format conversionSoftware
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converts bam to bigWigSoftware type: file format conversionSoftware
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The bigWig format is for display of dense, continuous data that will be displayed in the Genome Browser as a graph. BigWig files are created initially from wiggle (wig) type files, using the program wigToBigWig. The resulting bigWig files are in an indexeSoftware type: file format conversionSoftware
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bedToBigBed takes a standard bed file or a non-standard bed file with associated .as file to create a compressed bigBed version. Description of Big Binary Indexed (BBI) files and visualization of next-generation sequencing experiment results explained bySoftware type: file format conversionSoftware
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Signal generation from unstranded alignments for long-RNA-seq ENCODE uniform processing pipeline.Software type: file format conversionSoftware
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Performs common genomic analysis tasks and offers improved flexibility, scalability and execution time characteristics over previously published packages. The suite includes a utility to compress large inputs into a lossless format that can provide greateSoftware type: file format conversionSoftware
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Convert bedGraph to bigWig file. Description of Big Binary Indexed (BBI) files and visualization of next-generation sequencing experiment results explained by W.J. Kent, PMCID: PMC2922891Software type: file format conversionSoftware
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Generates normalized density signal from aligned and filtered reads for DNase ENCODE uniform processing pipeline.Software type: file format conversionSoftware
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Signal generation for long-RNA-seq ENCODE uniform processing pipeline.Software type: file format conversionSoftware
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The binary bigWig format can be converted to the text based wig or bedGraph formats using this utility.Software type: file format conversionSoftware
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Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetics: that is, set theory on the genome. For example, bedtools allows one to intersect, mergeSoftware type: file format conversion