Title |
BLASTPLOT: a PERL module to plot next generation sequencing NCBI-BLAST results
|
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Published in |
Source Code for Biology and Medicine, March 2014
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DOI | 10.1186/1751-0473-9-7 |
Pubmed ID | |
Authors |
Jesus Enrique Herrera-Galeano, Kenneth G Frey, Regina Z Cer, Alfred J Mateczun, Kimberly A Bishop-Lilly, Vishwesh P Mokashi |
Abstract |
The development of Next Generation Sequencing (NGS) during the last decade has created an unprecedented amount of sequencing data, as well as the ability to rapidly sequence specimens of interest. Read-based BLAST analysis of NGS data is a common procedure especially in the case of metagenomic samples. However, coverage is usually not enough to allow for de novo assembly. This type of read-based analysis often creates the question of how the reads that align to the same sequence are distributed. The same question applies to preparation of primers or probes for microarray experiments. Although there are several packages that allow the visualization of DNA segments in relation to a reference, in most cases they require the visualization of one reference at a time and the capture of screen shots for each segment. Such a procedure could be tedious and time consuming. The field is in need of a solution that automates the capture of coverage plots for all the segments of interest. |
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Geographical breakdown
Country | Count | As % |
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Cameroon | 1 | 25% |
Unknown | 3 | 75% |
Demographic breakdown
Type | Count | As % |
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Members of the public | 2 | 50% |
Scientists | 2 | 50% |
Mendeley readers
Geographical breakdown
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France | 3 | 8% |
United States | 1 | 3% |
Belgium | 1 | 3% |
Brazil | 1 | 3% |
Unknown | 31 | 84% |
Demographic breakdown
Readers by professional status | Count | As % |
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Researcher | 14 | 38% |
Student > Ph. D. Student | 9 | 24% |
Student > Master | 6 | 16% |
Student > Doctoral Student | 2 | 5% |
Lecturer | 2 | 5% |
Other | 3 | 8% |
Unknown | 1 | 3% |
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Biochemistry, Genetics and Molecular Biology | 5 | 14% |
Computer Science | 4 | 11% |
Environmental Science | 2 | 5% |
Nursing and Health Professions | 1 | 3% |
Other | 1 | 3% |
Unknown | 4 | 11% |