Selected article for: "read length and single read"
Author: Anna Shcherbina; Darrell O. Ricke; Nelson Chiu
Title: Evaluating performance of metagenomic characterization algorithms using in silico datasets generated with FASTQSim
  • Document date: 2016_3_31
    • ID: csokkcqq_22
    Snippet: Specifically, read length of 150 bases was used, with single base mutation, insertion, and deletion rates 117 as specified in the FASTQsim v. Two in silico datasets were generated -"HMP Even" and "HMP Staggered" (Supplementary Table 1) . 122 For the HMP even dataset, FASTQsim was executed to provide equal number of reads for each species 123 of organism (approximately 60,000 reads per species), with one exception ----559 reads for Streptococcus 1.....
    Document: Specifically, read length of 150 bases was used, with single base mutation, insertion, and deletion rates 117 as specified in the FASTQsim v. Two in silico datasets were generated -"HMP Even" and "HMP Staggered" (Supplementary Table 1) . 122 For the HMP even dataset, FASTQsim was executed to provide equal number of reads for each species 123 of organism (approximately 60,000 reads per species), with one exception ----559 reads for Streptococcus 124 agalactiae were added to simulate a low--level contaminant organism. Version 2.0 of the FASTQsim 125 algorithm probabilistically simulated read counts and error distributions based on a provided model. 126

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