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bioinformatics:public [2014/07/01 17:40]
127.0.0.1 external edit
bioinformatics:public [2015/10/15 22:37]
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-====== Tucson Marine Phage Lab's Public Script Repository ====== 
  
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-===== Script packages ===== 
-  * [[bioinformatics:​scripts:​toolkit|Sequence Analysis Toolkit]]\\ 
-     * A set of general scripts to deal with sequence file format conversion, recruitment plot or synteny plot. 
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-  * [[bioinformatics:​scripts:​popgen|Population Genomics]]\\ 
-    * These scripts are designed to study genetic variability within a given phage population. 
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-  * [[bioinformatics:​scripts:​sup05|Cultivation-independent exploration of SUP05 host-virus interactions in a model Oxygen Minimum Zone]]\\ 
-    * This package includes the script used in "​Cultivation-independent exploration of SUP05 host-virus interactions in a model Oxygen Minimum Zone". 
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-  *[[bioinformatics:​scripts:​Nature|Viral tagging reveals discrete populations in Synechococcus viral genome sequence space]]\\ 
-     * This includes the scripts used in 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. 
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-  * [[bioinformatics:​scripts:​pov|The Pacific Ocean Virome (POV)]]\\ 
-    * This package includes the scripts used in [[http://​www.plosone.org/​article/​info%3Adoi%2F10.1371%2Fjournal.pone.0057355|Hurwitz,​ B.L., & Sullivan, M.B. (2013). The Pacific Ocean Virome (POV): A marine viral metagenomic dataset and associated protein clusters for quantitative viral ecology. PLoS One. 8(2), e57355.]] 
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-  *[[bioinformatics:​scripts:​quantitative_assessment|Quantitative assessment of concentration,​ purification and replication in viral metagenomics]]\\ 
-    * This package includes the scripts used in [[http://​onlinelibrary.wiley.com/​doi/​10.1111/​j.1462-2920.2012.02836.x/​full|Hurwitz,​ B.L., Deng, L., Poulos, B.T., & Sullivan, M.B. (2012). Evaluation of methods to concentrate and purify ocean virus communities through comparative,​ replicated metagenomics. Environ Microbiol. 15(5), 1428–1440.]] 
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-  *[[bioinformatics:​scripts:​cyanophage|Phylogenomics of T4 cyanophages:​ Lateral gene transfer in the '​core'​ and origins of host genes.]]\\ 
-      * This includes the scripts used in [[http://​onlinelibrary.wiley.com/​doi/​10.1111/​j.1462-2920.2012.02704.x/​abstract|Ignacio-Espinoza,​ J.C., & Sullivan, M.B. (2012). Phylogenomics of T4 cyanophages:​ Lateral gene transfer in the '​core'​ and origins of host genes. Environ Microbiol. 14(8), 2113-2126.]] 
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-===== Data packages ​ ===== 
-  * {{:​bioinformatics:​scripts:​taxonomy_data.zip}} 
-  * {{:​bioinformatics:​scripts:​iplantsampledata.zip}} 
bioinformatics/public.txt · Last modified: 2015/10/15 22:37 (external edit)
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