SLM Quick Start Guide

Overview

  • SLM (Sample Lifecycle Manager) is a new way to submit samples and manage your data.
  • SLM requires a modern browser with javascript and cookies enabled.
  • SLM integrates with all of UAGC’s services.
  • In addition to sample submission, SLM also offers sample tracking and data organization.
  • URL (for submitting real samples): http://services.arl.arizona.edu

 

User Registration

  • All users must register in order to use SLM.
  • Click the register link on the front page to register a username.
  • Users without a UA NetID should make sure the ‘I have a UA NetID username’ box is UNCHECKED.
  • After filling out the form, SLM will send an activation email to the registered email address.
  • Check your spam folder if you can’t find the activation email.
  • Click on the link in the activation email to activate your account.

Logging In

  • Users with a UA NetId use their NetID and password to logon.
  • Users without a UA NetId use their email address as their username, and the password they entered during registration.
  • Users who forget their password can click on the ‘reset password’ link on the login screen to choose a new password.
 

Lab Groups

  • Submission and result data are accessible to all users within a lab group.
  • All users must be associated with a lab group before submitting samples.

Creating a Lab Group (for PIs ONLY!!!)

  • Click the ‘Home’ link in the navigation box.
  • Click the ‘My Lab Groups’ tab on the home page.
  • Click the ‘create a new lab group’ link, and fill out the form to create a new lab group.
  • The ‘Account Number’ field should contain a UofA KFS account number, or contact UAGC to establish an account number.

Accessing a Lab Group

  • A PI will need to add your username to a lab group to allow you access.
  • After your username has been registered, ask your PI to follow these steps:
  • Click the ‘Home’ link in the navigation box.
  • Click the ‘My Lab Groups’ tab on the home page.
  • Select a lab group.
  • Click the ‘Users’ tab to view current lab group users.
  • Click the ‘Add Users’ button to add a new user.
  • Enter the user’s NetID (or email address if the user does not have a UA NetID).
 

User Roles

  • Each lab user has a ‘role’ which determines what level of access they have.
  • User roles can be changed by a PI at any time by selecting and editing a user.
  • There are three different roles:
  • Collaborator - this user can view lab data, but cannot submit samples.
  • Technician - this user can view lab data and submit samples.
  • Manager - this user has the same privileges as a technician, plus they can also add and remove users from the lab group.

Lab Account Numbers

  • PIs and managers can add additional account numbers by clicking on the ‘accounts’ tab.
 

Submitting Samples

Create a New Submission

  • Click the ‘Home’ link in the navigation box.
  • Click the ‘Create Submission’ button.
  • Select a UAGC service to submit to.
  • Select the account number to be billed.
  • Follow the instructions on the site to complete the submission.

Supported Services

  • Plate (high volume) sequencing - ABI 3730
  • Tube (low volume) sequencing - ABI 3730
  • Fragment Analysis - ABI 3730
  • Agena/Sequenom Genotyping
  • Agena/Sequenom Methylation Analysis
  • Taqman Genotyping
  • DNA Extraction
  • Cell Line Authentication
  • Illumina HiSeq 2500
 

Submission Tracking and Viewing Results Data

Submission Tracking

  • Submitters will receive an email every time the status of a submission is updated (received, testing, completed, etc.).
  • Click on the link at the bottom of the email and follow the instructions if you don’t want to continue receiving status update emails.
  • Click the ‘Home’ link in the navigation box to view your submissions.
  • Click the ‘My Lab Groups’ tab and select a lab group to view submissions made by other users.
  • Click on the submission name to view its details.

Results Data

  • Click on the ‘Files’ tab to view results data when it becomes available.
  • Click on a file to download or view it.
  • Select multiple files, and then click the ‘Download Archive’ button to download all selected files as a zip archive.