Table of Contents

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The following tables displays which modules are included in the latest stable release of Farsight.

==

Instructions for the team: I am trying to make sure that all of the modules that we have developed are:

  • in the SVN repository
  • in the CPack installable build
  • described adequately in a wiki page that is linked (also a tutorial when possible).

We will do this one person at a time, and I will be in contact with each member of the team to get this assembled.

Keep all table entries brief, not to exceed the size of a Tweet (i.e, 140 letters or less). The wiki page will describe the module much more completely.

Don't worry about the order in which modules are listed for now. Eventually, they need to be in some systematic order.

We'll be adding more columns to the table later. Your suggestions are welcome. My main concern is to make sure that a biological user can make sense of the modules and know where to look for more information on how to use them. Another concern is to make sure that external collaborators are well positioned to contribute software modules to farsight in a way that is effective.

Badri.

==

Module Name Brief Description Contributors Comments
fregl Registration and Mosaicing Charlene Tsai
Nuclear Segmentation Segment 2-D & 3-D nuclear images Yousef Al-Kofahi
Pattern Analysis Isaac Abbott
Rendering Arunachalam Narayanaswamy
RPITrace3D Tracing of nuerons and cell processes Yousef Al-Kofahi / Arunachalam Narayanaswamy
Object_level_association Compute Object-level associative features Yousef Al-Kofahi
Features Compute nuclear features Isaac Abbot / Yousef Al-Kofahi
TissueNets Program Aytekin Vargun
TraceEdit Segment "hollow" vessels whose laminae are labeled Arunachalam Narayanaswamy
Vessel Laminae Segmentation Arunachalam Narayanaswamy
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