Last update July 21, 2015
Map Challenge Submission Overview
This document provides an overview of the 2015 map challenge web submission form, so that participants can become familiar with the requirements beforehand.
Notice something that is not quite right, or have a suggestion for improvement? Please let us know at challenges@emdatabank.org.
Files Needed for Upload
Have these files at-hand before you begin a submission:
- File or files with your final particle parameters, including particle positions, euler angles, and CTF. If your software package allows you to export a file in Electron Microscopy Exchange format, please do so (.emx, preferred format). Otherwise, please create a tar archive file to upload the parameter files (.tar).
- The final unfiltered map -- no masking, filtering, or sharpening (.mrc).
- The final filtered map -- no masking, with filtering and/or sharpening (.mrc).
- The even and odd half-maps used for FSC calculation (.mrc).
- Mask (if any) used for FSC calculation (.mrc).
Questionnaire
The map committee has designed the challenge submission questionnaire with the goals of enabling comparison of how different groups solve structures by EM, providing an educational tool for less-experienced microscopists and establishing reasonable expectations for computational resource requirements.
The submission form consists of nine pages in the following order:
Please fill out the requested information as completely as possible. You can navigate back and forth through the pages using the "previous page" and "next page" buttons. (warning: using browser navigation may reset your submission). On the final page there is a "submit" button to complete your entry.
Screenshots of each page are provided below.
Entry Info
Frames
The source image data for the reconstruction and any initial movie frame processing are described here. Frame-related questions are only asked for raw frames and aligned frames. This page is skipped for the in silico target.
CTF
Prepare
Prerefine
Additional information is requested for yes answers.
Refine
Additional information is requested for yes answers. If “Other” is selected for map refinement software, an additional box appears to collect the software name.
Postrefine
A description of the particle parameter file(s) uploaded is now also requested, including the euler angle convention used (7/21).
Validation
FSC curves from the submitted maps (and optional mask) will be calculated during the assessment phase from the provided data using the FSC validation server at PDBe.
Submission
Two text boxes are provided to request information about (1) computational resources and (2) any additional information not captured by the questions above.