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xxeytz 		start [2021/01/19 13:05] (current)
xxeytz
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 {{::64x64_plot.png}} {{::64x64_plot.png}}
 ====== pLOT Plasmid Plotter Manual ====== ====== pLOT Plasmid Plotter Manual ======
 +Download the [[Downloads|current version]] of the pLOT installation file.
 ===== Table of Contents ===== ===== Table of Contents =====
   - [[Introduction|Introduction]]   - [[Introduction|Introduction]]
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     * [[Getting Started#Installing pLOT|Installing pLOT]]     * [[Getting Started#Installing pLOT|Installing pLOT]]
     * [[Getting Started#Checking for updates|Checking for updates]]     * [[Getting Started#Checking for updates|Checking for updates]]
-  - [[Main window components and menu items|Main window components and menu items]] +  - [[Main window components and menu items|Main window components]] 
-    * [[Main window components and menu items#Creating a new sequence|Creating a new sequence]] +    * [[Main window components and menu items#Main Window Components|Main Window Components]] 
-    * [[Main window components and menu items#Opening an existing file|Opening an existing file]] +    * [[Main window components and menu items#The Tools Docking Window|The Tools Docking Window]] 
-    * [[Main window components and menu items#Saving your sequence|Saving your sequence]] +    * [[Main window components and menu items#The Feature Viewer Docking Window|The Feature Viewer Docking Window]] 
-    * [[Main window components and menu items#Annotating your sequence manually|Annotating your sequence manually]]+  - [[Creating and Editing Projects|Creating and Editing Projects]] 
 +    * [[Creating and Editing Projects#Creating a new sequence|Creating a new sequence]] 
 +    * [[Creating and Editing Projects#Opening an existing file|Opening an existing file]] 
 +    * [[Creating and Editing Projects#Saving your sequence|Saving your sequence]] 
 +    * [[Creating and Editing Projects#Annotating your sequence manually|Annotating your sequence manually]] 
 +    * [[creating_and_editing_projects#Setting the Project Codon Table|Setting the Project's Codon Table]]
   - [[Sequence Manipulations|Sequence Manipulations]]   - [[Sequence Manipulations|Sequence Manipulations]]
     * [[Sequence Manipulations#Inserting sequences|Inserting sequences]]     * [[Sequence Manipulations#Inserting sequences|Inserting sequences]]
     * [[Sequence Manipulations#Deleting sequences|Deleting sequences]]     * [[Sequence Manipulations#Deleting sequences|Deleting sequences]]
 +    * [[Sequence Manipulations#Rotating a Sequence|Rotating a sequence]]
     * [[Sequence Manipulations#Reverse/complementing a sequence|Reverse/complementing a sequence]]     * [[Sequence Manipulations#Reverse/complementing a sequence|Reverse/complementing a sequence]]
   - [[Feature Annotations|Feature Annotations]]   - [[Feature Annotations|Feature Annotations]]
 +    * [[Feature Annotations#Annotation properties|Annotation properties]]
     * [[Feature Annotations#Creating a new annotation|Creating a new annotation]]     * [[Feature Annotations#Creating a new annotation|Creating a new annotation]]
-    * [[Feature Annotations#Editing an annotation|Editing an annotation]]+    * [[Feature Annotations#Editing annotations|Editing annotations]] 
 +    * Setting a feature's map graphic 
 +    * Setting feature graphic drawing orders 
 +    * Setting a feature's codon table 
 +    * Editing a feature's references
     * [[Feature Annotations#Changing a feature’s sequence to case|Changing a feature’s sequence to case to uppercase or lowercase]]     * [[Feature Annotations#Changing a feature’s sequence to case|Changing a feature’s sequence to case to uppercase or lowercase]]
   - [[Annotation Library|Annotation Library]]   - [[Annotation Library|Annotation Library]]
-    * Adding features from an existing sequence to the library+    * [[annotation_library#Adding features from an existing sequence to the library|Adding features from an existing sequence to the library]]
       * [[Annotation Library#Adding individual annotations from a project to the library|Adding individual annotations from a project to the library]]       * [[Annotation Library#Adding individual annotations from a project to the library|Adding individual annotations from a project to the library]]
       * [[Annotation Library#Adding all Items from a project to the library|Adding all Items from a project to the library]]       * [[Annotation Library#Adding all Items from a project to the library|Adding all Items from a project to the library]]
-    * Managing your annotation library+    * [[annotation_library#Managing your annotation library|Managing your annotation library]]
       * [[Annotation Library#Editing annotation properties|Editing annotation properties]]       * [[Annotation Library#Editing annotation properties|Editing annotation properties]]
       * [[Annotation Library#Removing of duplicate entries|Removing of duplicate entries]]       * [[Annotation Library#Removing of duplicate entries|Removing of duplicate entries]]
       * [[Annotation Library#Using categories|Using categories]]       * [[Annotation Library#Using categories|Using categories]]
-    * [[Auto-annotation of a sequence|Auto-annotation of a sequence]]+    * [[Annotation Library#Auto-annotation of a sequence|Auto-annotation of a sequence]]
   - [[Restriction Analysis|Restriction Analysis]]   - [[Restriction Analysis|Restriction Analysis]]
-    * [[Selecting individual enzymes|Selecting individual enzymes]] +    * [[Restriction Analysis#Selecting individual enzymes|Selecting individual enzymes]] 
-    * [[Setting up multi-enzyme mixes|Setting up multi-enzyme mixes]] +    * [[Restriction Analysis#Setting up multi-enzyme mixes|Setting up multi-enzyme mixes]] 
-    * [[Adding new enzymes to the database|Adding new enzymes to the database]] (not yet implemented)+    * [[Restriction Analysis#Adding new enzymes to the database|Adding new enzymes to the database]] (not yet implemented) 
 +  - [[Tools|Tools]] 
 +    * [[tools#Converting Uppercase to Exons|Converting Uppercase to Exons]] 
 +      * [[Converting Uppercase to Exons Example|Example using NRF1]] 
 +    * [[tools#DNA Element Search|DNA Element Search]] 
 +    * [[tools#Converting Base Pair position to codon number|Converting Base Pair position to codon number]] 
 +    * [[tools#Converting codon number to Base Pair position|Converting codon number to Base Pair position]] 
 +    * [[tools#Converting an amino acid sequence to a DNA sequence|Converting an amino acid sequence to a DNA sequence]]
   - [[Virtual Gel Electrophoresis|Virtual Gel Electrophoresis]]   - [[Virtual Gel Electrophoresis|Virtual Gel Electrophoresis]]
-    * Opening the Virtual Gel Window +    * [[virtual_gel_electrophoresis#Opening the Virtual Gel Window|Opening the Virtual Gel Window]] 
-    * Setting the minimum fragment size +    * [[virtual_gel_electrophoresis#Setting the minimum fragment size|Setting the minimum fragment size]] 
-    * Show/Hide band sizes +    * [[virtual_gel_electrophoresis#Show/Hide band sizes|Show/Hide band sizes]] 
-    * Identifying the band in your sequence +    * [[virtual_gel_electrophoresis#Identifying the band in your sequence|Identifying the band in your sequence]] 
-    * Selecting ladders +    * [[virtual_gel_electrophoresis#Selecting ladders|Selecting ladders]] 
-    * Adding or editing ladders+    * [[virtual_gel_electrophoresis#Adding or editing ladders|Adding or editing ladders]]
   - [[start#Disclaimer|Disclaimer]]   - [[start#Disclaimer|Disclaimer]]
  
start.1610725135.txt.gz · Last modified: 2021/01/15 15:38 by xxeytz

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