HybPhyloMaker: Target Enrichment Data Analysis From Raw Reads to Species Trees
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216208%3A11310%2F18%3A10386014" target="_blank" >RIV/00216208:11310/18:10386014 - isvavai.cz</a>
Alternative codes found
RIV/67985939:_____/18:00508675
Result on the web
<a href="https://doi.org/10.1177/1176934317742613" target="_blank" >https://doi.org/10.1177/1176934317742613</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1177/1176934317742613" target="_blank" >10.1177/1176934317742613</a>
Alternative languages
Result language
angličtina
Original language name
HybPhyloMaker: Target Enrichment Data Analysis From Raw Reads to Species Trees
Original language description
Hybridization-based target enrichment in combination with genome skimming (Hyb-Seq) is becoming a standard method of phylogenomics. We developed HybPhyloMaker, a bioinformatics pipeline that performs target enrichment data analysis from raw reads to supermatrix-, supertree-, and multispecies coalescent-based species tree reconstruction. HybPhyloMaker is written in BASH and integrates common bioinformatics tools. It can be launched both locally and on a high-performance computer cluster. Compared with existing target enrichment data analysis pipelines, HybPhyloMaker offers the following main advantages: implementation of all steps of data analysis from raw reads to species tree reconstruction, calculation and summary of alignment and gene tree properties that assist the user in the selection of "quality-filtered" genes, implementation of several species tree reconstruction methods, and analysis of the coding regions of organellar genomes.
Czech name
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Czech description
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Classification
Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
10611 - Plant sciences, botany
Result continuities
Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)
Others
Publication year
2018
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Evolutionary Bioinformatics
ISSN
1176-9343
e-ISSN
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Volume of the periodical
14
Issue of the periodical within the volume
January
Country of publishing house
NZ - NEW ZEALAND
Number of pages
9
Pages from-to
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UT code for WoS article
000424039200001
EID of the result in the Scopus database
2-s2.0-85060288952