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bioinformatics:scripts:nature [2014/05/05 17:45]
chrissch
bioinformatics:scripts:nature [2015/10/15 22:37] (current)
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 ===== Viral tagging reveals discrete populations in Synechococcus viral genome sequence space ===== ===== Viral tagging reveals discrete populations in Synechococcus viral genome sequence space =====
 +**Associate manuscript for all scripts on this page:** Deng, L., Ignacio-Espinoza,​ J.C., Gregory, A., Poulos, B.T., Weitz, J.S., Hugenholtz, P., Sullivan, M.B. (accepted). Viral tagging reveals discrete populations in Synechococcus viral genome sequence space. Nature.
 +
  
 ==== recruitment ==== ==== recruitment ====
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 **Last Revision:** Nov 2013\\ **Last Revision:** Nov 2013\\
 **Description:​** Generates a random distribution of values of Q. The effect ​ size can be obtained by comparing this distribution to the observed values of Q.\\ **Description:​** Generates a random distribution of values of Q. The effect ​ size can be obtained by comparing this distribution to the observed values of Q.\\
 +
 +==== matrix2PCA.m ====
 +{{:​bioinformatics:​scripts:​matrix2pca.m.zip}}\\
 +**Author:** Julio Cesar Ignacio-Espinoza\\
 +**Last Revision:** Dec 2013\\
 +**Description:​** Matlab list of commands, input is a m x n matrix where m is the number of observations and n is the number of variables measured.\\ ​
 +
 +==== read2genome.pl ====
 +{{:​bioinformatics:​scripts:​read2genome.pl.zip}}\\
 +**Author:** Julio Cesar Ignacio-Espinoza\\
 +**Last Revision:** Dec 2013\\
 +**Description:​** The input files are a blastn file and a reference file. It aligns the best hits to the reference dataset, It outputs a per base frequency of nucleotides along the reference genome.\\
 +
 +==== randomGenome.pl ====
 +{{:​bioinformatics:​scripts:​randomgenome.pl.zip}}\\
 +**Author:** Julio Cesar Ignacio-Espinoza\\
 +**Last Revision:** Dec 2013\\
 +**Description:​** The input is the output of read2genome.pl. It generates a set of random contigs based on their per base frequency.\\ ​
 +
 +==== chopGenome.pl ====
 +{{:​bioinformatics:​scripts:​chopgenome.pl.zip}}\\
 +**Author:** Julio Cesar Ignacio-Espinoza\\
 +**Last Revision:** Dec 2013\\
 +**Description:​** The input is a fasta file, it outputs a multi fasta file where the original file has been cut. 
 +
 +
bioinformatics/scripts/nature.1399326353.txt.gz ยท Last modified: 2015/10/15 22:47 (external edit)
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