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bioinformatics:scripts:toolkit [2014/02/05 19:59]
simroux [MRPlot]
bioinformatics:scripts:toolkit [2015/10/15 22:37] (current)
Line 1: Line 1:
 ===== Sequence analysis Toolkit ===== ===== Sequence analysis Toolkit =====
 ====  Build ==== ====  Build ====
 +{{bioinformatics:​scripts:​build.zip}}\\
 +**Author:** Brandon Webb, Zachary Hare, Devesh Chourasiya\\
 +**Last Revision:** May 2013\\
 +**Description:​** Build.PL automatically installs all necessary resources and files to the user-specified directory or default directory.\\
  
-=== Author : === 
-Brandon Webb, Zachary Hare, Devesh Chourasiya 
-=== Last Revision : === 
-May 2013 
-=== Description : ===  
-Build.PL automatically installs all necessary resources and files to the user-specified directory or default directory. 
 ==== TrimPipe ==== ==== TrimPipe ====
-{{:​bioinformatics:​scripts:​trimpipe.zip}} +{{:​bioinformatics:​scripts:​trimpipe.zip}}\\ 
-=== Author : === +**Author:** Jonathan Cummings\\ 
-Jonathan Cummings +**Last Revision:** Apr 2013\\ 
-=== Last Revision : === +**Description:​** TrimPipe - Given a directory with .fastq or .fastq.gz files, will trim the files with DynamicTrim.pl and then use FastQC to perform quality analysis.\\ 
-Apr 2013 +
-=== Description : ===  +
-TrimPipe - Given a directory with .fastq or .fastq.gz files, will trim the files with DynamicTrim.pl and then use FastQC to perform quality analysis.+
 ==== Runhist ==== ==== Runhist ====
-{{:​bioinformatics:​scripts:​runhist.zip}} +{{:​bioinformatics:​scripts:​runhist.zip}}\\ 
-=== Author : === +**Author:** Jonathan Cummings\\ 
-Jonathan Cummings +**Last Revision:** Apr 2013\\ 
-=== Last Revision : === +**Description:​** Runhist - Given the input directory, output histogram plots to the output directory in pdf form.\\ 
-Apr 2013 +
-=== Description : ===  +
-Runhist - Given the input directory, output histogram plots to the output directory in pdf form.+
 ==== MRPlot ==== ==== MRPlot ====
-{{:​bioinformatics:​scripts:​mrplot.zip}} +{{:​bioinformatics:​scripts:​mrplot.zip}}\\ 
-=== Author : === +**Author:** Brandon Webb\\ 
-Brandon Webb +**Last Revision:** Apr 2013\\ 
-=== Last Revision : === +**Description:​** MRPlot - Given a BLAST or CAMERA ,csv output, parse and format an output .csv file (CAMERA dependent), recruitment plot file, and GNU plot file.\\ 
-Apr 2013 +
-=== Description : ===  +
-MRPlot - Given a BLAST or CAMERA ,csv output, parse and format an output .csv file (CAMERA dependent), recruitment plot file, and GNU plot file.+
 ==== MCLSyntenyPlotting ==== ==== MCLSyntenyPlotting ====
 +{{:​bioinformatics:​scripts:​mclsyntenyplotting.zip}}\\
 +**Author:** Brandon Webb\\
 +**Last Revision:** Apr 2013\\
 +**Description:​** MCLSytenyPlotting -- Given a MCL output file, parse and format an synteny csv file for GNU plotting.\\
  
-=== Author : === 
-Brandon Webb 
-=== Last Revision : === 
-Apr 2013 
-=== Description : ===  
-MCLSytenyPlotting -- Given a MCL output file, parse and format an synteny csv file for GNU plotting 
 ==== LatticeHist ==== ==== LatticeHist ====
 +{{:​bioinformatics:​scripts:​latticehist.zip}}\\
 +**Author:** Jonathan Cummings\\
 +**Last Revision:** Apr 2013\\
 +**Description:​** Creates a lattice of histograms using data from a specific csv file.\\
  
-=== Author : === 
-Jonathan Cummings 
-=== Last Revision : === 
-Apr 2013 
-=== Description : ===  
-Creates a lattice of histograms using data from a specific csv file. 
 ==== TaxonomySearch ==== ==== TaxonomySearch ====
 +{{:​bioinformatics:​scripts:​taxonomysearch.zip}}\\
 +**Author:** Brandon Webb\\
 +**Last Revision:** Apr 2013\\
 +**Description:​** Given a .csv formated file containing GIvalues of each genome, query the NCBI protein database and retrieve the corresponding taxonomy name.\\
  
-=== Author : === 
-Brandon Webb 
-=== Last Revision : === 
-Apr 2013 
-=== Description : ===  
-Given a .csv formated file containing GIvalues of each genome, query the NCBI protein database and retrieve the corresponding taxonomy name. 
 ==== Combiner ​ ==== ==== Combiner ​ ====
- +{{:​bioinformatics:​scripts:​combiner.zip}}\\ 
-=== Author : === +**Author:** Jonathan Cummings\\ 
-Jonathan Cummings +**Last Revision:** Apr 2013\\ 
-=== Last Revision : === +**Description:​** Given two fastq files and an output file, combine the two input files into the output file.\\
-Apr 2013 +
-=== Description : ===  +
-Given two fastq files and an output file, combine the two input files into the output file.+
  
bioinformatics/scripts/toolkit.1391648365.txt.gz · Last modified: 2015/10/15 22:47 (external edit)
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