| Analysis Step | Status | Results | ||
|---|---|---|---|---|
| 1 | Quality Control | Queued | ||
CommandsThis is the list of all commands run by the server.Live output |
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| 2 | Alignment & Quantification | Queued | ||
CommandsThis is the list of all commands run by the server.Live output |
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| 3 | Differential Expression Analysis | Queued | ||
CommandsThis is the list of all commands run by the server.Live output |
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| 4 | Post Analysis | Queued | ||
CommandsThis is the list of all commands run by the server.Live output |
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Alaska will compile your project into a format acceptable for submission to the GEO. All your reads and analysis results will be compressed into a single file. You may download this file and submit it to the GEO yourself. Alternatively, Alaska may perform the submission for you if you wish (Alaska submissions are private until you contact the GEO to make them public). This may take a while depending on the number of samples you have. We'll send you an email when everything's ready.
Alaska will upload your project to the Gene Expression Omnibus. For Alaska to submit your reads to the GEO, please provide your GEO account username. If you do not have one, you can create a GEO account here. We will also need your GEO FTP information, which you can find by logging into GEO and going to the GEO File Transfer Protocol (FTP). Once there, navigate to the FTP server credentials header, and copy and paste this information.
An error occured while performing a step in the analysis. Please check the live output for more information. Most issues can be resolved by retrying the analysis, by clicking the redo icon next to the project status. If this happens again, please contact WormBase for assistance, with your project ID.
Checked inputs will be automatically applied to all samples. All the fields here are required, either as shared metadata (by activating the checkbox) or sample-specific metadata (by deactivating the checkbox).
Problematic input fields are highlighted with red. Details of these fields are listed below. Please fix those inputs and press the verify metadata button again.
Your project ID is:
Store this ID! If you need to contact the WormBase team regarding your project, include your ID.
If you pause your analysis, use this URL
for your project:
Alaska accepts .fastq
or .fastq.gz files in folders.
Files associated with one sample must be placed within
a folder and the folder must be named like the sample
(i.e.: wt1 is the name of the folder for the first wild type
replicate).
Make sure your submission has the correct directory structure!
For all the examples, each perturbation has two replicates. Sequences for a single sample are split into 4 FASTQ files each.
For each sample, prepare a folder and place all the FASTQ files for that sample in the folder. No other form of submission is accepted. Here is what it would look like.
Samples are uploaded through an FTP service. Large files may be transferred through a server. We recommend that you use an FTP client, such as Cyberduck.
Click the button below for upload details.
This is the information you need to provide to your FTP service or client to transfer your files.
Please click the button below ONLY once all your files are uploaded.
| Folder | Filename | Size | MD5 Checksum |
|---|---|---|---|
| folder | filename | size |
Alaska requires at least two replicates for each perturbation, so a minimum of 4 samples are required. Please upload more samples and try again.
Alaska found num samples.
We extracted the sample names from the folders you provided. If you wish to name the samples differently, please rename them now. Sample names can be anything, but the following special characters are forbidden: \ / $ % ` ~
Sample names must be unique.
An unknown error occured while processing your request. Most errors are resolved by reloading the page. If you encounter this issue again, please contact WormBase Help with your project ID and the server output below.
Your password was reset successfully. Please close this popup and login with your new password.
Before we begin, we need to verify your email so that only you have access to your project!