OICE Wiki

affine_registration

Anonymous (anonymous@undisclosed.example.com) — 2017-05-04T05:37:51+00:00

Affine Registration [ ] Parameters: * initial transformation: 12 numbers specifying the initial transformation before optimization. The first 3 parameters specify the angles around the z-, the rotated x- and the double-rotated z-axis, parameters 4-6 specify the translation along the x-, y- and z-axis, parameters 7-9 specify the scale along the x-, y- and z-axis, the remaining parameters 10-15 specify the shearing.

fiji_plugins

Anonymous (anonymous@undisclosed.example.com) — 2017-05-03T09:29:13+00:00

OICE Fiji Plugins * Affine Registration A plugin for affine 3D image alignment. The user can freely choose which parameters of an affine transformation are optimized. * Interactive Attenuation Correction A plugin for interactively adjust the contrast along the z-direction in a stack. * Local Maxima 3D Plugin for detecting local intensity maxima, similar to ImageJ's

first_steps_as_a_new_user

Anonymous (anonymous@undisclosed.example.com) — 2018-06-23T14:11:28+00:00

First steps as a new user In order to establish a safe and efficient research environment, the following steps are mandatory for new users at the OICE: * Contact Benjamin Schmid() to request an account in the OICE's central user database, which is comprised of a variety of IT services, including this wiki.

it_services_at_the_oice

Anonymous (anonymous@undisclosed.example.com) — 2015-10-12T08:35:24+00:00

IT services at the OICE In order to simplify access to the different IT systems available at the OICE, every user will be presented with a central account that can presently be used for authentication at the following systems: *

The central user database administration interface (GOSA). Use this to change your password,

on-site_safety_regulations

Anonymous (anonymous@undisclosed.example.com) — 2014-08-12T10:20:04+00:00

On-site safety regulations At the OICE different levels of safety regulations are in effect to provide a safe work environment. The laboratory tract features a fully S2/S1 GenTech certified biochemical laboratory and four microscope labs that fall under the same safety category.

prices_for_internal_and_external_users

Anonymous (anonymous@undisclosed.example.com) — 2021-04-08T07:32:26+00:00

Prices for internal and external users OICE is fully acknowledged by the DFG. This price regulations are in full accordance with the DFG rules. You can ask for the covering of costs in grant applications on th ebasis of th egiven prces. Or you get in touch with a member of staff beforehand.

recommended_literature

Anonymous (anonymous@undisclosed.example.com) — 2016-12-14T09:03:02+00:00

Recommended literature This section lists recommended articles, review papers and books that will help users to gain a more detailed insight into the microscopy techniques available at the OICE. Fluorophores * * * * * * * *

safety_regulations_at_the_oice

Anonymous (anonymous@undisclosed.example.com) — 2014-07-10T08:07:07+00:00

OICE provides different levels of safety regulations to match the needs of all users. We have a fully S2/S1 GenTech certified biochemical laboratory. In addition all commercial microscopes are under the same safety regulations. To work within this premises implies some preliminararay administrative adjustments - before - work at OICE can be performed.

sample_preperation_for_sted_microscopy

Anonymous (anonymous@undisclosed.example.com) — 2016-02-22T16:32:44+00:00

sop_intravital_microscopy_in_mice_and_rats

Anonymous (anonymous@undisclosed.example.com) — 2018-04-10T07:08:32+00:00

start

Anonymous (anonymous@undisclosed.example.com) — 2018-04-09T12:30:35+00:00

Welcome to the OICE Wiki This Wiki is meant as a way for both OICE staff and users to get information on internal processes, e.g. account setup, microscope bookings, data storage, backup facilities, etc. Information for OICE users * Usage regulations * Prices for internal and external users * on-site_safety_regulations *

usage_regulations

Anonymous (anonymous@undisclosed.example.com) — 2021-04-08T07:24:37+00:00

Usage regulations February, 2017 The OICE is a nonprofit organisation and is open to scientists at the conditions laid out below. External usage is, in general, possible. You can download a pdf of the * 1. Owners who contribute equipment to the pool do not have to pay for the usage of their own devices.

using_a_microscope_in_the_oice_pool

Anonymous (anonymous@undisclosed.example.com) — 2021-02-10T11:51:44+00:00

Using a microscope it the OICE pool In-house OICE users will mostly work with devices controlled by computers running a version of Microsoft Windows, currently mostly Windows 7. This might, however, change in the future to devices running other operating systems.

working_with_omero

Anonymous (anonymous@undisclosed.example.com) — 2020-01-10T09:39:02+00:00

Working with OMERO The OMERO server supports multiple front ends to add, download and analyse image data. Currently, there are two o ptions available for OICE users: * - The web interface accessible through : No configuration is necessary. The web interface comes with OMERO.figure for conveniently creating high-quality figures, but cannot be used to import data into the OMERO.server