Virtual Screening - Revision history

Mariadb: /* Video Manual */

2022-10-18T07:06:07Z

‎Video Manual

Mariadb: /* Why my browser can't display VSTH properly? */

2022-10-18T07:05:14Z

‎Why my browser can't display VSTH properly?

Mariadb: /* Docking program selection */

2022-10-17T06:37:14Z

‎Docking program selection

Mariadb: /* Job monitoring */

2022-10-10T01:45:11Z

‎Job monitoring

Mariadb: /* Job monitoring */

2022-07-08T07:11:43Z

‎Job monitoring

Mariadb: /* Job monitoring */

2022-07-08T02:23:58Z

‎Job monitoring

Mariadb: /* Job monitoring */

2022-07-08T02:16:01Z

‎Job monitoring

Mariadb: /* Why can't I get email reminder? */

2022-07-06T10:17:17Z

‎Why can't I get email reminder?

Mariadb: /* Why can't I get email reminder? */

2022-07-06T10:16:56Z

‎Why can't I get email reminder?

Mariadb: /* Why can't I get recommended pocket by Fpocket? */

2022-07-06T10:15:55Z

‎Why can't I get recommended pocket by Fpocket?

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 =FAQ=
 ==Video Manual==
-We provide a video manual here [https://matgen.nscc-gz.cn/wiki/images/vs2.gif].
+We provide a video manual [https://matgen.nscc-gz.cn/wiki/images/vs2.gif here].
 ==Why can't I get email reminder? ==

@@ Line 65: / Line 65: @@
 ==Why my browser can't display VSTH properly? ==
-The web interface is written in HTML, JavaScript, Bootstrap and uses 3Dmol.js for displaying. If the browser does not support webgl, some functions may not be available. we recommend users to use browsers like Chrome 103.0.5060.66, Firefox 101.0.1, Microsoft Edge 103.0.1264.37, or above versions, which have been tested.
+The web interface is written in HTML, JavaScript, Bootstrap and uses 3Dmol.js for displaying. If the browser does not support webgl, some functions may not be available. we recommend users to use browsers like [https://matgen.nscc-gz.cn/wiki/images/vs2.gif Chrome 103.0.5060.66], [https://matgen.nscc-gz.cn/wiki/images/firefox.gif Firefox 101.0.1], [https://matgen.nscc-gz.cn/wiki/images/edge.gif Microsoft Edge 103.0.1264.37], [https://matgen.nscc-gz.cn/wiki/images/opera.gif Opera 91.0.4516.65], [https://matgen.nscc-gz.cn/wiki/images/safari.gif Safari 15.6.1], or above versions, which have been tested.
 ==Why can't I get recommended pocket calculated by Fpocket?==
 We found that fpocket cannot handle overly large proteins (for instance, The protein of 7LFH contains 80,000 atoms). However, 7LFH is symmetrical with many repeating chains. We recommend that users use the preprocessing tool we developed to delete irrelevant chains. In additional, we have provided more methods for identifying active pocket. Users can identify active pocket by the centroid of the binding ligand, or supply the (X, Y, Z) coordinates of its center and its box size directly.

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 <p><center><strong>Figure 4. </strong>select docking program and setting parameters</center> </p>
 <p><center><strong>Table 1. </strong>docking programs and its advanced parameters</center> </p>
-<br><center>http://matgen.nscc-gz.cn/wiki/images/All_parameter.png</center><br>
+<br><center>http://matgen.nscc-gz.cn/wiki/images/parameters_221017.png</center><br>
 == Job submission ==

@@ Line 46: / Line 46: @@
 == Job monitoring ==
-<p>On vs_result[https://matgen.nscc-gz.cn/vs_result.html] screen, users have the option to type in their task id, check status, get results and cancel task.To get docking job detail like docking method and binding sites, users can click "Docking Job Details". For those finished jobs, users can click "Download"(1) and get a CSV file which contains a list of filename, score, and cluster id. To download the processed protein file, click the download icon(2). To download the consensus ranking result, click the download icon(3).  This consensus ranking list based on the rank of each docking method. For each compounds, Let r_i denote the rank of compounds list based on the i_th virtual docking, and ρ_compare denote the product of all ranks. The formula can be expressed as[[Image:consensus_rank.png]]. To download the specific conformation, click the download icon(4) near the conformation 3D viewer.</p>
+<p>On vs_result[https://matgen.nscc-gz.cn/vs_result.html] screen, users have the option to type in their task id, check status, get results and cancel task.To get docking job detail like docking method and binding sites, users can click "Docking Job Details". For those finished jobs, users can click "Download"(1) and get a CSV file which contains a list of filename, score, and cluster id. To download the processed protein file, click the download icon(2). To download the consensus ranking result, click the download icon(3).  This consensus ranking list based on the rank of each docking method. For each compounds, let r_i denote the rank of compounds list based on the i_th virtual docking, and ρ_compare denote the product of all ranks. The formula can be expressed as[[Image:consensus_rank.png]]. To download the specific conformation, click the download icon(4) near the conformation 3D viewer.</p>
 [[Image:status.png|800px|center]]
 <p><center><strong>Figure 6. </strong> job status screenshot

@@ Line 46: / Line 46: @@
 == Job monitoring ==
-<p>On vs_result[https://matgen.nscc-gz.cn/vs_result.html] screen, users have the option to type in their task id, check status, get results and cancel task.To get docking job detail like docking method and binding sites, users can click "Docking Job Details". For those finished jobs, users can click "Download"(1) and get a CSV file which contains a list of filename, score, and cluster id. To download the processed protein file, click the download icon(2). To download the consensus ranking result, click the download icon(3).  This consensus ranking list based on the rank of each docking. For each compounds, Let r_i denote the rank of compounds list based on the i_th virtual docking, and ρ_compare denote the product of all ranks. The formula can be expressed as[[Image:consensus_rank.png]]. To download the specific conformation, click the download icon(4) near the conformation 3D viewer.</p>
+<p>On vs_result[https://matgen.nscc-gz.cn/vs_result.html] screen, users have the option to type in their task id, check status, get results and cancel task.To get docking job detail like docking method and binding sites, users can click "Docking Job Details". For those finished jobs, users can click "Download"(1) and get a CSV file which contains a list of filename, score, and cluster id. To download the processed protein file, click the download icon(2). To download the consensus ranking result, click the download icon(3).  This consensus ranking list based on the rank of each docking method. For each compounds, Let r_i denote the rank of compounds list based on the i_th virtual docking, and ρ_compare denote the product of all ranks. The formula can be expressed as[[Image:consensus_rank.png]]. To download the specific conformation, click the download icon(4) near the conformation 3D viewer.</p>
 [[Image:status.png|800px|center]]
 <p><center><strong>Figure 6. </strong> job status screenshot

@@ Line 46: / Line 46: @@
 == Job monitoring ==
-<p>On vs_result[https://matgen.nscc-gz.cn/vs_result.html] screen, users have the option to type in their task id, check status, get results and cancel task.To get docking job detail like docking method and binding sites, users can click "Docking Job Details". For those finished jobs, users can click "Download" and get a CSV file which contains a list of filename, score, and cluster id. To download the specific conformation, click the download icon near the conformation 3D viewer.</p>
+<p>On vs_result[https://matgen.nscc-gz.cn/vs_result.html] screen, users have the option to type in their task id, check status, get results and cancel task.To get docking job detail like docking method and binding sites, users can click "Docking Job Details". For those finished jobs, users can click "Download"(1) and get a CSV file which contains a list of filename, score, and cluster id. To download the processed protein file, click the download icon(2). To download the consensus ranking result, click the download icon(3).  This consensus ranking list based on the rank of each docking. For each compounds, Let r_i denote the rank of compounds list based on the i_th virtual docking, and ρ_compare denote the product of all ranks. The formula can be expressed as. To download the specific conformation, click the download icon(4) near the conformation 3D viewer.</p>
 [[Image:status.png|800px|center]]
 <p><center><strong>Figure 6. </strong> job status screenshot
   </center></p>
-[[Image:vs_res.png|800px|center]]
+[[Image:Res_page.png|800px|center]]
 <p><center><strong>Figure 7. </strong> job result screenshot
   </center></p>

@@ Line 60: / Line 60: @@
 ==Why can't I get email reminder? ==
-We recommend users to use academic email. The enterprise email, like QQ, Yeah, have been tested successfully. The outlook email is failed to get messages. Other emails require further testing.
+We recommend users to use academic email.
 ==Why my browser can't display VSTH properly? ==