Documentation

Click here for online documentation

Forums

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Tutorials

WARNING: All tutorials were developed for the alpha version and may be out of date with regards to some features. Please be patient while we update. 

Protospacer tutorials have their home on Youtube. Click on one of the links below to begin.
Note: Tutorials assume that you have seen them in order. Tutorials without links are still in development for the beta version of Protospacer.

> Basic Protospacer tutorials

(T01) Install Protospacer and run for the first time.
(T02) Install a pre-made database.
(T03) Run Protospacer and load a database, overview of the user interface.
(T04) Find target sites between two genomic coordinates (between search).
(T05) List target sites relative to one genomic coordinate (distance search).
(T06) Find all target sites (naive search); find all targets within a gene.

(T07) Filter target sites (for  ‘between’, ‘distance’, and ‘naive’ searches).
(T08) Compare one target site to all others (sequence search).
(T09) Change parameters for ‘distance’ and ‘sequence’ searches.
(T10) Go back to previous searches, using the history tab.
(T11) Copy data to clipboard and/or excel.

> Advanced Protospacer tutorials

(T--) Customize a database with additional sequences. (removed in beta)
(T12) Connect to IGV.  

(T13) Use gene co-ordinates to anchor a search.
(T14) Using spread sheet software (Excel) to evaluate paired designs.

> Protospacer Database Creator tutorials

(T15) Overview of the process and a simple example.
(T16) Making sure input files have the correct format.

(T17) Advanced options.
(T18) Using the test mode.

> Programmatic access to the database

(T19) Database design.

(T20) Python code snippets.