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Algorithms and Data Structures for Sequence Analysis in the Pan-Genomic Era

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Figure 3.1: Size in bits of RLZ compression using different artificial references on two 1GB collections: Gov2 1GB is part of a web crawl from the TREC collection, and Proteins is a set of protein sequences obtained from the Swissprot database
Figure 3.2: Size in bits of RLZ compression using different artificial references on two 1GB collections: English is a concatenation of English text from the Gutenberg Project, and Rep 1GB is a very repetitive synthetic file made of 400 copies of a random
Figure 4.1: Schematic view of the construction of the kernel string. Vertical lines represent the phrase boundaries of an LZ77 parsing
Table 4.1: Different parsing algorithms to index collection CHR 21 , a 90GB syn- syn-thetic collection made of DNA
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