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Preface. Bacterial pangenomics.

Overview of attention for book
Cover of 'Preface. Bacterial pangenomics.'

Table of Contents

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    Book Overview
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    Chapter 1 Pulsed Field Gel Electrophoresis and Genome Size Estimates
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    Chapter 2 Comparative analyses of extrachromosomal bacterial replicons, identification of chromids, and experimental evaluation of their indispensability.
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    Chapter 3 Choice of Next-Generation Sequencing Pipelines
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    Chapter 4 The pyrosequencing protocol for bacterial genomes.
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    Chapter 5 Bacterial Metabarcoding by 16S rRNA Gene Ion Torrent Amplicon Sequencing.
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    Chapter 6 The illumina-solexa sequencing protocol for bacterial genomes.
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    Chapter 7 High-throughput phenomics.
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    Chapter 8 Comparative Analysis of Gene Expression: Uncovering Expression Conservation and Divergence Between Salmonella enterica Serovar Typhimurium Strains LT2 and 14028S
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    Chapter 9 Raw sequence data and quality control.
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    Chapter 10 Methods for Assembling Reads and Producing Contigs
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    Chapter 11 Mapping Contigs Using CONTIGuator.
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    Chapter 12 Gene Calling and Bacterial Genome Annotation with BG7.
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    Chapter 13 Defining orthologs and pangenome size metrics.
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    Chapter 14 Robust Identification of Orthologues and Paralogues for Microbial Pan-Genomics Using GET_HOMOLOGUES: A Case Study of pIncA/C Plasmids.
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    Chapter 15 Genome-scale metabolic network reconstruction.
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    Chapter 16 From pangenome to panphenome and back.
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    Chapter 17 Genome-Wide Detection of Selection and Other Evolutionary Forces
  19. Altmetric Badge
    Chapter 18 The integrated microbial genome resource of analysis.
  20. Altmetric Badge
    Chapter 19 Erratum to: Genome-Wide Detection of Selection and Other Evolutionary Forces
Attention for Chapter 9: Raw sequence data and quality control.
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Chapter title
Raw sequence data and quality control.
Chapter number 9
Book title
Bacterial Pangenomics
Published in
Methods in molecular biology, October 2014
DOI 10.1007/978-1-4939-1720-4_9
Pubmed ID
Book ISBNs
978-1-4939-1719-8, 978-1-4939-1720-4
Authors

Bacci G, Giovanni Bacci, Bacci, Giovanni

Abstract

Next-generation sequencing technologies are extensively used in many fields of biology. One of the problems, related to the utilization of this kind of data, is the analysis of raw sequence quality and removal (trimming) of low-quality segments while retaining sufficient information for subsequent analyses. Here, we present a series of methods useful for converting and for refinishing one or more sequence files. One of the methods proposed, based on dynamic trimming, as implemented in the software StreamingTrim allows a fast and accurate trimming of sequence files, with low memory requirement.

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The data shown below were collected from the profile of 1 X user who shared this research output. Click here to find out more about how the information was compiled.
Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 29 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Belgium 1 3%
Unknown 28 97%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 7 24%
Researcher 6 21%
Student > Bachelor 3 10%
Professor > Associate Professor 3 10%
Student > Master 2 7%
Other 4 14%
Unknown 4 14%
Readers by discipline Count As %
Agricultural and Biological Sciences 13 45%
Biochemistry, Genetics and Molecular Biology 6 21%
Veterinary Science and Veterinary Medicine 1 3%
Computer Science 1 3%
Unspecified 1 3%
Other 2 7%
Unknown 5 17%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 30 October 2014.
All research outputs
#14,203,052
of 22,768,097 outputs
Outputs from Methods in molecular biology
#4,174
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Outputs of similar age
#134,895
of 260,259 outputs
Outputs of similar age from Methods in molecular biology
#23
of 126 outputs
Altmetric has tracked 22,768,097 research outputs across all sources so far. This one is in the 35th percentile – i.e., 35% of other outputs scored the same or lower than it.
So far Altmetric has tracked 13,090 research outputs from this source. They receive a mean Attention Score of 3.3. This one has gotten more attention than average, scoring higher than 64% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 260,259 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 45th percentile – i.e., 45% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 126 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 76% of its contemporaries.