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Title[redir]:
HISAT: a fast spliced aligner with low memory requirements - PMC
Description:
HISAT (hierarchical indexing for spliced alignment of transcripts) is a highly efficient system for aligning reads from RNA sequencing experiments. HISAT uses an indexing scheme based on the Burrows-Wheeler transform and the Ferragina-Manzini (FM) ...
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Keywords {🔍}
reads, alignment, hisat, read, index, splice, hisatx, supplementary, search, doi, sites, exons, local, data, spliced, genome, anchors, sensitivity, alignments, human, global, pmc, methods, simulated, rnaseq, tophat, fig, million, run, align, memory, long, google, scholar, article, indexes, star, programs, note, olego, free, pubmed, exon, found, correctly, locations, gsnap, program, faster, small,
Topics {✒️}
post-transcriptional processing generates rna-seq unified mapper single rna-seq experiment burrows-wheeler transform–based programs rna-seq analysis begins rna-seq data set rna-seq data sets low-level operations required challenging spliced-alignment problems spliced mrna-seq reads annotated protein-coding genes gt/ag splice sites gt/ag splice sites rna-seq alignment algorithms [google scholar] 13 [google scholar] 14 open-source software freely long noncoding rnas pmc beta search error-free reads rna-seq data rna-seq experiments fast gapped-read alignment leading spliced-alignment programs simulated data set splice sites collected suffix-array methods star rna-seq reads burrows-wheeler transform true splice site splice site information core alignment engine simulated data sets highly efficient system fetal lung fibroblasts large memory requirements rna sequencing experiments turn dramatically speeds burrows-wheeler transform12 data availability statements splice site detection protein-coding genes apply hierarchical indexing stage hierarchical indexing recently created pseudogenes splice site supported align short-anchored reads core memory includes united states government license information pmcid
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