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001 978-3-030-13845-5
003 DE-He213
005 20250526092115.0
007 cr nn 008mamaa
008 190610s2019 sz | s |||| 0|eng d
020 _a9783030138455
_9978-3-030-13845-5
024 7 _a10.1007/978-3-030-13845-5
_2doi
050 4 _aRC261-271
072 7 _aMJCL
_2bicssc
072 7 _aMED062000
_2bisacsh
072 7 _aMJCL
_2thema
082 0 4 _a571.978
_223
082 0 4 _a616.994
_223
100 1 _aCouto, Francisco M.
_eauthor.
_4aut
_4http://id.loc.gov/vocabulary/relators/aut
245 1 0 _aData and Text Processing for Health and Life Sciences
_h[electronic resource] /
_cby Francisco M. Couto.
250 _a1st ed. 2019.
264 1 _aCham :
_bSpringer International Publishing :
_bImprint: Springer,
_c2019.
300 _aXV, 98 p. 483 illus., 74 illus. in color.
_bonline resource.
336 _atext
_btxt
_2rdacontent
337 _acomputer
_bc
_2rdamedia
338 _aonline resource
_bcr
_2rdacarrier
347 _atext file
_bPDF
_2rda
490 1 _aAdvances in Experimental Medicine and Biology,
_x2214-8019 ;
_v1137
505 0 _aPreface -- Introduction -- Resources -- Data Retrieval -- Text Processing -- Semantic processing -- Index.
506 0 _aOpen Access
520 _aThis open access book is a step-by-step introduction on how shell scripting can help solve many of the data processing tasks that Health and Life specialists face everyday with minimal software dependencies. The examples presented in the book show how simple command line tools can be used and combined to retrieve data and text from web resources, to filter and mine literature, and to explore the semantics encoded in biomedical ontologies. To store data this book relies on open standard text file formats, such as TSV, CSV, XML, and OWL, that can be open by any text editor or spreadsheet application. The first two chapters, Introduction and Resources, provide a brief introduction to the shell scripting and describe popular data resources in Health and Life Sciences. The third chapter, Data Retrieval, starts by introducing a common data processing task that involves multiple data resources. Then, this chapter explains how to automate each step of that task by introducing the required commands line tools one by one. The fourth chapter, Text Processing, shows how to filter and analyze text by using simple string matching techniques and regular expressions. The last chapter, Semantic Processing, shows how XPath queries and shell scripting is able to process complex data, such as the graphs used to specify ontologies. Besides being almost immutable for more than four decades and being available in most of our personal computers, shell scripting is relatively easy to learn by Health and Life specialists as a sequence of independent commands. Comprehending them is like conducting a new laboratory protocol by testing and understanding its procedural steps and variables, and combining their intermediate results. Thus, this book is particularly relevant to Health and Life specialists or students that want to easily learn how to process data and text, and which in return may facilitate and inspire them to acquire deeper bioinformatics skills in the future.
650 0 _aCancer.
650 0 _aMedical genetics.
650 0 _aDatabase management.
650 0 _aData mining.
650 1 4 _aCancer Biology.
650 2 4 _aMedical Genetics.
650 2 4 _aDatabase Management.
650 2 4 _aData Mining and Knowledge Discovery.
710 2 _aSpringerLink (Online service)
773 0 _tSpringer Nature eBook
776 0 8 _iPrinted edition:
_z9783030138448
776 0 8 _iPrinted edition:
_z9783030138462
830 0 _aAdvances in Experimental Medicine and Biology,
_x2214-8019 ;
_v1137
856 4 0 _uhttps://doi.org/10.1007/978-3-030-13845-5
912 _aZDB-2-SBL
912 _aZDB-2-SXB
912 _aZDB-2-SOB
999 _c36
_d36