I have data...what now?
This section covers:
1. Data transfer.
2. Data processing.
Data transfer
External users: Hard drive or globus.
Internal users with BMRC accounts: please refer to the Internal section.
Regularly required input parameters:
-Total dose (e/A2). This should have been noted down during data collection set up.
-Desired box size (often in pix). It is often advisable to bin data for pre-processing (fourier crop value in cryoSPARC). Refer to internal pages for box size recommendations.
-Gain reference location.
-Movie location.
-Calibrated pix size...note that this does not necessarily correspond to the header in your raw movies, since it is not editable in EPU by facility managers.
Calibrated pixel sizes for Krios/Falconiv-selectris:
Post stage upgrade
81Kx --> 1.5134 huApoF 05/10/2022
105KX --> 1.1871 huApoF 05/10/2022
130Kx --> 0.932 huApoF 05/10/2022
165KX --> 0.7303 huApoF 05/10/2022
Historical
Magnification Pixel size Date last checked
53Kx --> 2.322 huApoF 15/06/2022
64kx --> 1.91 huApoF 15/06/2022
81Kx --> 1.522 huApoF 15/06/2022
105KX --> 1.14 huApoF 26/03/2022
130Kx --> 0.894 huApoF 26/03/2022
165KX --> 0.7 huApoF 26/03/2022
215Kx --> 0.571 huApoF 26/03/2022
270Kx --> 0.456 huApoF 18/04/2022
Acknowledging opic
It would be a great help for our facility if you could remember to acknowledge OPIC in any resulting publications, posters, and/or talks.
If you used BMRC resources as part of your visit, please also remember to acknowledge them too.
Suggested information:
A: Computation by BMRC, microscopy by OPIC, some authors from the Wellcome Centre
"Computation used the Oxford Biomedical Research Computing (BMRC) facility, a joint development between the Wellcome Centre for Human Genetics and the Big Data Institute supported by Health Data Research UK and the NIHR Oxford Biomedical Research Centre. Financial support was provided by the Wellcome Trust Core Award Grant Number 203141/Z/16/Z. Microscopy experiments were conducted at the OPIC electron microscopy facility, an Instruct centre, founded and supported by Wellcome and MRC."
B: Computation by BMRC, microscopy by OPIC, NO authors from the Wellcome Centre.
"Computation used the Oxford Biomedical Research Computing (BMRC) facility, a joint development between the Wellcome Centre for Human Genetics and the Big Data Institute supported by Health Data Research UK and the NIHR Oxford Biomedical Research Centre. Microscopy experiments were conducted at the OPIC electron microscopy facility, an Instruct centre, founded and supported by Wellcome and MRC. "
C: Microscopy by OPIC ONLY.
"Microscopy experiments were conducted at the OPIC electron microscopy facility, an Instruct centre, founded and supported by Wellcome and MRC. "