TPP Demo2009 - 2. Download and install the test data and database 下載並安裝測試資料

For this demo, we will be using a SILAC-labeled Yeast dataset, comprised of 2 runs on a high mass-accuracy Orbitrap instrument, along with a Yeast database appended with decoys. We also include a search parameters file.

Deom 所用的資料為 SILAC-labeled Yeast 資料，包含在高精準度 Orbitrap 儀器下的2組數據。序列資料庫為 Yeast 並包含 decoys。資料亦附上搜尋的參數檔。

• If you would like to start the pipeline with the conversion of the vendor's raw data format to the open mzML format, you will need to install the free Microsoft Visual C++ 2008 SP1 Redistributable Package as well as the free MSFileReader from Thermo. You can then download the raw demo data as a zip file (308Mb) and unzip (you can obtain a free unzip utility, such as 7zip, from the web). You should find 2 files.

如果想從原始數據 raw data 轉換至開放的 mzML 格式，請安裝 Microsoft Visual C++ 2008 SP1 Redistributable Package 及 MSFileReader from Thermo。原始 raw data 則從 download the raw demo data as a zip file (308Mb) 下載，解開壓縮檔後應該有2個檔案。

*.執行 download the raw demo data as a zip file 後，會跳出以下視窗，按下"Continue to Select Files"。

*.確認 "Download everything" 打勾後，按下"Contiune to Save Location"。

*.按下"Change"按鈕更改儲存目錄後，再按下"Continue to Download"。

*.進入下載畫面，等待完成後即可關閉讓視窗。

*.成功下後的 .tar.gz 解開後，應該有2個 RAW 檔案。

• If you would rather skip this conversion step, please download the pre-converted mzML files (766Mb) and unzip.

如果要略過上個步驟轉換 raw data，請下載已轉換完成的 mzML 檔案 download the pre-converted mzML files 。

• Download the parameter and database files from parameter_database (4.4Mb)

從 parameter_database 下載搜尋參數檔案與序料資料庫。

• Copy or move the yeast_orfs_all_REV.20060126.subset.fasta file into the folder C:\Inetpub\wwwroot\ISB\data\dbase

將序列資料庫 yeast_orfs_all_REV.20060126.subset.fasta 複製到 C:\Inetpub\wwwroot\ISB\data\dbase 。

• Copy or move the two data files (OR20080317_S_SILAC-LH_1-1_01.raw and OR20080317_S_SILAC-LH_1-1_11.raw) -- or the .mzML files if that is what you downloaded -- as well as the tandem parameters file tandem.xml into the folder C:\Inetpub\wwwroot\ISB\data\demo2009\tandem . Create this last folder if necessary.

將2個 raw data 與搜尋參數檔案複製或移動到 C:\Inetpub\wwwroot\ISB\data\demo2009\tandem 。如果目錄不存在請自行建立。