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We have deployed our new file quality control (QC) module, where we provide more information to customers about how their files support the standard specifications set forth by the International Society for Advancement of Cytometry (ISAC). Errors in FCS files have become a growing concern at Cytobank as we have seen an increase in the number of ways FCS files are generated and the availability of several preprocessing tools which may not fully support the FCS specification proposed by ISAC. Files that do not meet the specification may affect how certain algorithms inside and outside of Cytobank interpret these files (e.g. SPADE can be affected by a bad file). The goal of the QC module is to let users know about problematic FCS files and inform the user about recommended changes/next steps. In most cases, discrepancies due to software are minor and do not affect end user analysis (if an experiment has such files, the discrepancies will be available to the user by clicking on the show warnings link).

We’ve rolled out the latest release to all of our servers, and have a few changes we would like to highlight. electricity production in china First, links that are admin only now have a small wrench image next to them. These are functions that only admins on our servers have access to, including tools that are beta and may not yet be released. Second, the way SPADE and exports are handled in the background have improved. This means that several SPADE runs and exports can run in the background at the same time. Finally, if you migrate your old Cytobank data sets to a new server, ACS files (an archive of your entire experiment) will maintain their created date. This will help users keep track of older versus newer experiments regardless of when it was uploaded to the new server.

We’ve recently released Cytobank 2.7.3 which includes a new interface for exporting statistics. It is now possible to specify which stat, annotation, or keyword will be written to a .tsv or .csv file, and in what order. In addition, it is also now possible to save templates of often used statistics and load them between experiments for more efficient and consistent analysis. This new interface can be accessed by everyone via the “Export Experiment Statistics” link in the Actions toolbar while viewing the experiment overview.

We’ve incremented to the next sub version (2.7) with the release of our visual plate annotator interface, which allows users to lay out and annotate their plate-based experiments in a visual interface that mimics the actual plate used during sample acquisition. year 6 electricity worksheets This manner of spatially arranging samples is aimed to facilitate high throughput annotation, and there are tools built in that are designed to facilitate annotating in patterns within and among plates. This functionality can be accessed through any of our premium functionality servers including DVS Cytobank and Enterprise Cytobank.

The latest release of Cytobank is live on our servers, including some new functionality and a few bug fixes. electricity voltage in norway Of note this time around, we’ve altered the way Inbox filters work. You can now filter the list of experiments you see in your Inbox by choosing to view only experiments you uploaded or those for which you are the primary researcher (“My Experiments”), experiments that others have shared with you directly or through projects of which you are a member (“Shared with me”), experiments that have been made public to everyone on Cytobank or your hosted server (“Public experiments”), experiments you have archived (“Archived experiments”), or experiments you have deleted (“Trash”). You can read more about the new experiment filters on our documentation site. Stay tuned for an upcoming post highlighting functionality that will help you keep your inbox organized!

In the latest releases to Cytobank, we have made some big improvements to PDFs of your saved illustrations. The biggest change you will notice is that the data contained in PDFs are now displayed on one continuous, scalable page. This makes it easier for you to excerpt your data when preparing figures, and fixes a previous issue with especially wide or long plot sets getting truncated. Stay tuned for a blog post that will put these changes in context.

The Cytobank developers have been busy bees, implementing features requested by our users and squashing new bugs as they arise. Of note, we have added a “selective cloning” feature that allows you to create a new experiment that contains a subset of an existing experiment’s FCS files. gas out game commercial This would be a handy way to split files off into a new experiment if a subset of files use a different compensation matrix, or to separate debarcoded files generated with our “Create Experiment from Gated Files” feature (stay tuned for a post on Fluorescence Cell Barcoding).

• There is a new “Profile” link at the top of the page to make it easier to get to your profile. Among the things you can do on your Profile page, you can change your email address, change your PI, and change the default contents of your Inbox when you first land on that page (e.g., to see only your experiments, or always see “All Experiments”). The “Welcome, Username” link will also bring you to your Profile page.

• When we updated projects so that managers have full access to all experiments regardless of the settings for members/leaders, there was a bug where existing managers already on a project were not getting access to the new experiments. Managers who were already on a project will have full access to experiments added to the project from now on. This is not retroactive for experiments that were on the projects before the last release.

We recently rolled out our latest release to the servers. A couple changes we’d like to highlight. electricity projects for 4th graders First, managers of projects now have full access to all experiments in those projects. (Read more about projects on our documentation site.) We’ll have a separate blog post discussing projects [updated 08/22/2011] and how you can use them to share groups of experiments with colleagues. Second, you can now archive experiments in your Inbox. This is a new feature that has been frequently requested, and we’re excited to finally roll it out to you to help you better organize your experiments!

We’ve released a considerable number of changes to Cytobank over the past six weeks. Many of these new features are not yet visible to our users, because they operate in the background to power Cytobank Reports. You can see Cytobank Reports in action by viewing the Report created for the Nolan Lab’s recent mass cytometry study. Cytobank Reports also powers the datasheets in the BD FACSelect Buffer Compatibility Resource. In the near future, users will be able to use these features and create their own Reports to showcase their data and analyses.

The update this week fixes an issue with the gating applet that was preventing it from loading properly in Firefox 4. There are a few remaining issues that we are aware of. On a Mac, pop-up windows like “Manage Populations” do not seem to be working properly. Click on the Java icon that appears in the dock to see the pop-ups. If you get a Java icon in the gating applet area, try reloading your browser. b games zombie As always, please submit a support ticket if you notice other issues.

Most of the Annotation pages have been updated for ease of use. The “Add” text box (in which you can type a comma-separated list of tags) has been moved to the main section of the page. These pages also now contain links to hop directly to the Timepoints, Dosages, Conditions, Individuals, or Sample Types pages. For example, after tagging your files with Timepoints variables, you can now click “Edit Conditions” under “Actions” on the left sidebar to be taken directly to the Conditions page, without having to return to your Working Illustration.

We released Cytobank 2.3.4 to our production server this week, and we expect to release it on all of our hosted servers over the weekend. j gastroenterol hepatol The most visible change to all users may be the new Getting Started boxes (more after the jump). Another change will be noticeable to those using Cytobank on their iPhone or iPad (see our recent blog post about Cytobank on the iPad).

The Getting Started boxes are the green boxes at the top of the Inbox, Experiment Details, Working Illustration, and Compensation pages, as well as at the top of the Gating Applet. (You may need to click on the arrowhead in the green title bar to expand these if you’ve previously minimized them.) We’ve updated the text and links in these boxes. The linked video tutorials open directly in a lightbox on the page so that you can view the video without losing your place in Cytobank. We hope these new Getting Started boxes will provide useful tips and guidance.

One change that may not be immediately apparent to existing Cytobank users is that we now send an email verification link to new users when they first register. We also send a verification link if existing users update their email addresses. Users will still be able to access Cytobank if they haven’t yet verified their (new) email address.

We’d like to highlight two new features of note in this latest release. The first is that we’ve fixed some caching/performance related bugs. Now, after you’ve opened an illustration for the first time, subsequent reloads should happen much more quickly. This should be very apparent when you start rearranging your dimensions. The second new feature of note is the ability to see the Percent in Gate of a selected gate’s events when compared to the selected/active populations in the figure dimension. This statistic was displayed only on the plots previously, but it can now be shown in the table of statistics below each plot group for easy cutting and pasting to other software.

We hope that this was an informative summary about all the latest and greatest changes to Cytobank and that the new features will be useful to you. We’ve got plenty of new features queued up, as well as cleanup of existing functionality, so stay tuned. gas definition wikipedia We love getting feedback from our users, be it positive or negative, so please send us an email, tweet, or use the “Feedback” link in the footer of the application.