# BioImage Analysis

<div id="bkmrk-the-dcsr-team-is-abl">The DCSR team can help you with your image analysis pipeline. The person involved in this is **Antony Carrard**, *Image Analysis and Machine Learning specialist.*</div>## **Support Overview**

From a quick question or a quick opinion, to a long project conceived and structured together. Everything related to extracting information and data from your images can be discussed together.

Here are some of the main topics that we are usually asked about:

<div id="bkmrk--0"></div>- Image pre-processing and enhancement
- Object detection and/or image *segmentation*
- Object *tracking*
- Quantifications (shape, dynamics, colocalization, and other properties)
- Clustering / classification of objects
- Visualization (rendering high-dimensional images, 3D images, etc.)
- Analytics (statistics of the extracted information).

<div id="bkmrk--9"></div><div id="bkmrk-usually-most-of-the-">Most of the analyzes carried out from us are programmed in **Python** as it is the most widespread programming language for the subject and is very fast and adaptive. (Please, if you're already familiar with Python, visit this very useful page: **https://bioimagebook.github.io/index.html**)</div><div id="bkmrk-but...">But...</div>### Software

<div id="bkmrk-energy-consumption-i">If you are not interested or do not feel ready to experiment with code, we can use together some easy and intuitive software.</div><div id="bkmrk-here-something-you-c">Here something you can checkout:</div><div id="bkmrk--10"></div><div id="bkmrk-imagej---https%3A%2F%2Fima">- **ImageJ** and Fiji- [https://imagej.net/imaging/segmentation](https://imagej.net/imaging/segmentation)
- **CellProfile** - [https://cellprofiler.org](https://cellprofiler.org)
- **QuPath** - https://qupath.github.io
- **Ilastik** - [https://www.ilastik.org](https://www.ilastik.org)

</div><div id="bkmrk--11"></div><div id="bkmrk--12"></div>## **Contact &amp; Terms of support**

<div id="bkmrk-we-distinguish-two-k"><span style="color: rgb(35, 111, 161);"><span style="color: rgb(0, 0, 0);">**Main contact:** </span></span><research-computing-fbm@unil.ch></div><div id="bkmrk-"></div><div id="bkmrk-we-distinguish-two-k-1">**<span style="color: rgb(0, 0, 0);">Important</span>:** <span style="color: rgb(0, 0, 0);">we distinguish two kinds of support:</span></div>- **service mode**: if you need <span style="text-decoration: underline;">quick help</span> on a certain problem / if you need a suggestion, an information or similar - Submit a ticket to <research-computing-fbm@unil.ch> with subject: **<span style="color: rgb(35, 111, 161);">*Service - \*name of your department\** </span>**<span style="color: rgb(35, 111, 161);"><span style="color: rgb(0, 0, 0);">.</span></span>
- **project mode**: if you have a more <span style="text-decoration: underline;">complex project</span> that requires several weeks/months of work and you want to collaborate with us - Submit a ticket to <research-computing-fbm@unil.ch> with subject: <span style="color: rgb(35, 111, 161);">***Project - \*name of your department\**** <span style="color: rgb(0, 0, 0);">.</span></span>

<div id="bkmrk-to-stay-tuned-on-pag"><span style="color: rgb(0, 0, 0);">**Stay tuned**:</span> general info, scheduled events and meetings, or also to directly contact us, join **our** **Teams channel**:</div>[General | Image Analysis and ML support at FBM Teams | Microsoft Teams](https://teams.microsoft.com/l/team/19%3Ain9Ysbu54cRiJw1j4T896jUWBkmwpWhRObwWId3L6ks1%40thread.tacv2/conversations?groupId=e4231fa4-dd25-41ab-8d6f-f056515a844d&tenantId=25933cd5-fa42-4290-9edd-84c5831bcdd8)

<div id="bkmrk--1"></div><span style="color: rgb(35, 111, 161);"><span style="color: rgb(0, 0, 0);">**Other contact:** <a aria-label="Link helpdesk@unil" class="fui-Link ___m14voj0 f3rmtva f1ern45e f1deefiw f1n71otn f1q5o8ev f1h8hb77 f1vxd6vx f1ewtqcl fyind8e f1k6fduh f1w7gpdv fk6fouc fjoy568 figsok6 f1hu3pq6 f11qmguv f19f4twv f1tyq0we f1g0x7ka fhxju0i f1qch9an f1cnd47f fqv5qza f1vmzxwi f1o700av f13mvf36 f9n3di6 f1ids18y fygtlnl f1deo86v f12x56k7 f1iescvh ftqa4ok f50u1b5 fs3pq8b f1hghxdh f1tymzes f1x7u7e9 f1cmlufx f10aw75t fsle3fq" rel="noopener noreferrer" tabindex="-1" target="_blank" title="mailto:helpdesk@unil">helpdesk@unil.ch</a> with subject <span style="color: rgb(35, 111, 161);">*DCSR Image* </span></span></span><span style="color: #236fa1;"><span style="caret-color: rgb(35, 111, 161);">*Analysis* </span></span>