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DESCRIPTION | ||
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VAPOR is a tool for classification of Influenza samples from raw short read sequence data for downstream bioinformatics analysis. VAPOR is provided with a large set of reference fastas (> 20,000) for a given segment, a set of reads, and attempts to retrieve one that is closest to the sample strain. | ||
VAPOR is a tool for classification of Influenza samples from raw short read sequence data for downstream bioinformatics analysis. VAPOR is provided with a fasta file of full-length sequences (> 20,000) for a given segment, a set of reads, and attempts to retrieve a reference that is closest to the sample strain. | ||
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REQUIREMENTS | ||
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Python 3.x | ||
NumPy >= 1.51.x | ||
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INSTALLATION | ||
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TESTING | ||
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To test, run: | ||
A test dataset is provided in the repository/tests. To test, clone the repo as above, and run: | ||
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vapor.py -fq tests/test_reads.fq -fa tests/HA_sample.fa | ||
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@@ -55,11 +60,6 @@ Author: Joel Southgate | |
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Email (for inquiries): [email protected] | ||
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REQUIREMENTS | ||
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Python 3.x | ||
NumPy >= 1.51.x | ||
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COPYRIGHT | ||
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Copyright 2018 Joel Southgate | ||
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