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date Wed, 16 May 2018 17:02:51 -0400
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1 # models
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2 Used by genReads.py for simulating various characteristics of NGS datasets.
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5 ## mutation models
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7 * Used via '-m' parameter
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9 **MutModel_NA12878.p** - Mimic mutations via statistics derived from NA12878 germline variant calls.
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10 (Note that due to filesize restrictions, this one will need to be unzipped first)
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11 **MutModel_BRCA_US_ICGC.p** - Aggregate breast cancer mutation statistics from deidentified ICGC data.
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12 **MutModel_CLLE-ES_ICGC.p** - Aggregate leukemia mutation statistics from deidentified ICGC data.
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13 **MutModel_SKCM-US_ICGC.p** - Aggregate melanoma mutation statistics from deidentified ICGC data.
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16 ## sequencing error models
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18 * Used via '-e' parameter
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20 **errorModel_toy.p** - Sequencing error statistics derived from in-house NGS data.
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23 ## paired-end fragment length distribution model
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25 * Used via '--pe-model' parameter
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27 **fraglenModel_toy.p** - Fragment length statistics derived from in-house NGS data.
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30 ## GC% coverage bias model
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32 * Used via '--gc-model' parameter
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34 **gcBias_toy.p** - GC% coverage bias statistics derived from in-house NGS data.