I am unable to open my files once they are downloaded

When you download individual files or a directory from Genomics Depot, they are either individually zipped or in a zipped directory. You need to unzip it with WinZip, 7-Zip or any other file compression software. From there you can view them in the software of your choice.

What freeware is available to view my files?

Sanger Sequencing

A compressed folder of your Sanger sequencing ab1 files is made available in a folder named by date of when the data was uploaded. Typically, samples submitted by 10 am will be processed that day and results will be uploaded the next business day. Samples are analyzed with the KB basecaller program. For additonal information on Sanger services visit the Sanger Sequencing page.

Accurate sequencing data can only be obtained from the electropherogram, so it is very important to look at it and not just the sequence. Below are several programs available to visualize Sanger sequencing files. Note, some are free and some are available for purchase:

QuantStudio 7 Flex RTqPCR:

A compressed folder of your Real-Time qPCR EDS file is made available in a folder named by date of when the data was uploaded. Typically. samples submitted by 4pm will be set up to run that day and results will be uploaded the next business day.

Applied Biosystems QuantStudio™ 6 & 7 Flex Real-Time PCR System software can be downloaded to analyze your data:

GeneScan/Fragment Analysis

GeneScan and Fragment Analysis data is provided in .fsa file format and is made available in a folder named by date of when the data was uploaded. The files can be viewed using the GeneScan software which is available on a computer in the Genomics Core foyer or via Peak Scanner. Peak Scanner is a freeware that can be downloaded from the Thermo Fisher/Invitrogen/Applied Biosystems website:

NanoString

A compressed folder of your RCC files is made available in a folder named by date of when the data was uploaded. NanoString's nSolver software is needed to analyze the data and can be downloaded from NanoString's website:

SmartChip (TakarBio/WaferGen)

A compressed folder of your SmartChip data is made available in a folder named by date of when the data was uploaded.

Cell ID

Cell ID data is provided in an excel table that has been exportedc from the Genotyper software, The excel file shows the sample genotypes for each of the markers. There will also be a summary table tab showing the results for each sample.

I am unable to log in to the Genomic Depot with my MSU NetID

Make sure you have been set-up with an account first by contacting RTSF. If you know you have been set-up and have received the email then check with us first to make sure we have the correct MSU NetID associated with your account. There is a known issue with departmental accounts.

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