CRUK-CI Genomics Help

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submission:process [2024/04/09 11:03] – Initial transfer from existing page. Richard Bowerssubmission:process [2025/02/14 11:51] (current) – Ania Piskorz
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 ====== The Submission Process ====== ====== The Submission Process ======
  
-  - First, download a submission form from the [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/forms/DownloadForm.action|forms page]]. There are forms on this page to submit for sequencing only (SLX), library preparation and sequencing (LPS), and 10x single cell submissions. Download the form appropriate to the submission you are making. Always download the newest form for new submissions as these forms do evolve over time: older forms may no longer work. +  - First, download a submission form from the [[submission: forms|Submission forms page]]. There are forms on this page to submit for sequencing only (SLX), library preparation and sequencing (LPS), and 10x single cell submissions. Download the form appropriate to the submission you are making. Always download the newest form for new submissions as these forms do evolve over time: older forms may no longer work. 
-  - Complete the form carefully and accurately. There is help for each of the forms in these [[root:start|help pages]]. When done, [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/submit/UploadSubmission.action|upload the completed form to the submission portal]].+  - Complete the form carefully and accurately. There is help for each of the forms in these [[:start|help pages]]. When done, [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/submit/UploadSubmission.action|upload the completed form to the submission portal]].
     - If you do not already have an account for the sequencing service, you will need to sign up before you will be able to make your submission. Please use [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/login/CreateUser.action|this page]] to make a request for an account.     - If you do not already have an account for the sequencing service, you will need to sign up before you will be able to make your submission. Please use [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/login/CreateUser.action|this page]] to make a request for an account.
-  - The submission web application will check for common submission form errors before creating the samples in our Clarity LIMS system. These checks cannot catch everything; getting submissions right at the start is much less work for everyone involved than fixing problems after sequencing. [[start|Refer to the help]], and if in any doubt please get in touch with the [[genomics-helpdesk@cruk.cam.ac.uk|Genomics help desk]]. Take particular care to make sure the indexes are correct when submitting for sequencing only. The Genomics and Bioinformatics cores do not support demultiplexing for a second time to fix incorrect barcodes: that will be your responsibility, for which there is help here.+  - The submission web application will check for common submission form errors before creating the samples in our Clarity LIMS system. These checks cannot catch everything; getting submissions right at the start is much less work for everyone involved than fixing problems after sequencing. [[:start|Refer to the help]], and if in any doubt please get in touch with the [[genomics-helpdesk@cruk.cam.ac.uk|Genomics help desk]]. Take particular care to make sure the indexes are correct when submitting for sequencing only. The Genomics and Bioinformatics cores do not support demultiplexing for a second time to fix incorrect barcodes: that will be your responsibility, for which there is help here.
   - [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/submit/UploadSubmission.action|Upload your completed submission form to the submission portal.]] The form will be checked for problems and any errors will be reported back so the form can be corrected and resubmitted.    - [[https://genomicsequencing.cruk.cam.ac.uk/sequencing/submit/UploadSubmission.action|Upload your completed submission form to the submission portal.]] The form will be checked for problems and any errors will be reported back so the form can be corrected and resubmitted. 
   - With no reported errors in the form, simply confirm the submission and the samples are submitted to Clarity. If your group requires submissions to Genomics to be approved, the people who do the approval will be notified via email to confirm the submission before the samples are queued. For groups without a dedicated approver the samples will be queued straight away.   - With no reported errors in the form, simply confirm the submission and the samples are submitted to Clarity. If your group requires submissions to Genomics to be approved, the people who do the approval will be notified via email to confirm the submission before the samples are queued. For groups without a dedicated approver the samples will be queued straight away.
   - If there are any additional queries regarding billing or technical aspects with the submission, the Genomics core will be in touch directly.   - If there are any additional queries regarding billing or technical aspects with the submission, the Genomics core will be in touch directly.
   - Await your results!    - Await your results!