Update site content and build

Author: Thomas Girke

content/en/about/project.md

@@ -66,19 +66,19 @@ Templates are available via _systemPipeRdata_ on Bioconductor and from the proje
 
 | **Name**   | **Description**                          | **URL**      |
 |------------|------------------------------------------|--------------|
-| new        | Generic Workflow Template                | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/new.html), [GitHub](https://github.com/systemPipeR/sprwf-new-02-14-04) |
-| rnaseq     | RNA-Seq Workflow Template                | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeRNAseq.html), [GitHub](https://github.com/systemPipeR/sprwf-rnaseq-02-14-04) |
-| riboseq    | RIBO-Seq Workflow Template               | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeRIBOseq.html), [GitHub](https://github.com/systemPipeR/sprwf-riboseq-02-14-04) |
-| chipseq    | ChIP-Seq Workflow Template               | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeChIPseq.html), [GitHub](https://github.com/systemPipeR/sprwf-chipseq-02-14-04) |
-| varseq     | VAR-Seq Workflow Template                | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeVARseq.html), [GitHub](https://github.com/systemPipeR/sprwf-varseq-02-14-04) |
-| SPblast    | BLAST Workflow Template                  | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPblast.html), [GitHub](https://github.com/systemPipeR/sprwf-spblast-02-14-04) |
-| SPcheminfo | Cheminformatics Drug Similarity Template | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPcheminfo.html), [GitHub](https://github.com/systemPipeR/sprwf-spcheminfo-02-14-04) |
-| SPscrna    | Basic Single-Cell Workflow Template      | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPscrna.html), [GitHub](https://github.com/systemPipeR/sprwf-spscrna-02-14-04) |
+| new        | Generic Workflow Template                | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/new.html), [GitHub](https://github.com/systemPipeR/sprwf-new) |
+| rnaseq     | RNA-Seq Workflow Template                | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeRNAseq.html), [GitHub](https://github.com/systemPipeR/sprwf-rnaseq) |
+| riboseq    | RIBO-Seq Workflow Template               | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeRIBOseq.html), [GitHub](https://github.com/systemPipeR/sprwf-riboseq) |
+| chipseq    | ChIP-Seq Workflow Template               | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeChIPseq.html), [GitHub](https://github.com/systemPipeR/sprwf-chipseq) |
+| varseq     | VAR-Seq Workflow Template                | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeVARseq.html), [GitHub](https://github.com/systemPipeR/sprwf-varseq) |
+| SPblast    | BLAST Workflow Template                  | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPblast.html), [GitHub](https://github.com/systemPipeR/sprwf-spblast) |
+| SPcheminfo | Cheminformatics Drug Similarity Template | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPcheminfo.html), [GitHub](https://github.com/systemPipeR/sprwf-spcheminfo) |
+| SPscrna    | Basic Single-Cell Workflow Template      | [Bioc](https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPscrna.html), [GitHub](https://github.com/systemPipeR/sprwf-spscrna) |
 
 Shared components used by some or all of the above workflows are given in this table. The `param` component is required for all workflows, while `data` is only used by some of them. 
 
 | **Name**   | **Description**                          | **URL**      |
 |------------|------------------------------------------|--------------|
-| param      | CWL Parameter Files                      | [GitHub](https://github.com/systemPipeR/sprwfcmp-data) |
+| param      | CWL Parameter Files                      | [GitHub](https://github.com/systemPipeR/sprwfcmp-param) |
 | data       | Small Test Datasets                      | [GitHub](https://github.com/systemPipeR/sprwfcmp-data) |
 

public/about/project/index.html

@@ -23,12 +23,12 @@
 <meta property="og:type" content="article" />
 <meta property="og:url" content="https://systempipe.org/about/project/" /><meta property="article:section" content="about" />
 
-<meta property="article:modified_time" content="2026-02-13T12:22:02-08:00" />
+<meta property="article:modified_time" content="2026-02-13T12:59:58-08:00" />
 
 <meta itemprop="name" content="About Project">
 <meta itemprop="description" content="Overview The systemPipe project provides a suite of R/Bioconductor packages for designing, building, and executing end-to-end data analysis workflows on local machines and high-performance computing (HPC) systems, while simultaneously generating publication-quality analysis reports.
 This website serves primarily as a landing page that provides a high-level overview of each package and links to their corresponding pages on Bioconductor. Detailed usage instructions, examples, and technical documentation are available in the package vignettes hosted on Bioconductor (linked below).">
-<meta itemprop="dateModified" content="2026-02-13T12:22:02-08:00" />
+<meta itemprop="dateModified" content="2026-02-13T12:59:58-08:00" />
 <meta itemprop="wordCount" content="365">
 <meta itemprop="keywords" content="" /><meta name="twitter:card" content="summary"/><meta name="twitter:title" content="About Project"/>
 <meta name="twitter:description" content="Overview The systemPipe project provides a suite of R/Bioconductor packages for designing, building, and executing end-to-end data analysis workflows on local machines and high-performance computing (HPC) systems, while simultaneously generating publication-quality analysis reports.
@@ -386,42 +386,42 @@ <h2 id="workflow-templates">Workflow Templates</h2>
 <tr>
 <td>new</td>
 <td>Generic Workflow Template</td>
-<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/new.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-new-02-14-04">GitHub</a></td>
+<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/new.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-new">GitHub</a></td>
 </tr>
 <tr>
 <td>rnaseq</td>
 <td>RNA-Seq Workflow Template</td>
-<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeRNAseq.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-rnaseq-02-14-04">GitHub</a></td>
+<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeRNAseq.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-rnaseq">GitHub</a></td>
 </tr>
 <tr>
 <td>riboseq</td>
 <td>RIBO-Seq Workflow Template</td>
-<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeRIBOseq.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-riboseq-02-14-04">GitHub</a></td>
+<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeRIBOseq.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-riboseq">GitHub</a></td>
 </tr>
 <tr>
 <td>chipseq</td>
 <td>ChIP-Seq Workflow Template</td>
-<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeChIPseq.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-chipseq-02-14-04">GitHub</a></td>
+<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeChIPseq.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-chipseq">GitHub</a></td>
 </tr>
 <tr>
 <td>varseq</td>
 <td>VAR-Seq Workflow Template</td>
-<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeVARseq.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-varseq-02-14-04">GitHub</a></td>
+<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/systemPipeVARseq.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-varseq">GitHub</a></td>
 </tr>
 <tr>
 <td>SPblast</td>
 <td>BLAST Workflow Template</td>
-<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPblast.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-spblast-02-14-04">GitHub</a></td>
+<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPblast.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-spblast">GitHub</a></td>
 </tr>
 <tr>
 <td>SPcheminfo</td>
 <td>Cheminformatics Drug Similarity Template</td>
-<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPcheminfo.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-spcheminfo-02-14-04">GitHub</a></td>
+<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPcheminfo.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-spcheminfo">GitHub</a></td>
 </tr>
 <tr>
 <td>SPscrna</td>
 <td>Basic Single-Cell Workflow Template</td>
-<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPscrna.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-spscrna-02-14-04">GitHub</a></td>
+<td><a href="https://www.bioconductor.org/packages/devel/data/experiment/vignettes/systemPipeRdata/inst/doc/SPscrna.html">Bioc</a>, <a href="https://github.com/systemPipeR/sprwf-spscrna">GitHub</a></td>
 </tr>
 </tbody>
 </table>
@@ -438,7 +438,7 @@ <h2 id="workflow-templates">Workflow Templates</h2>
 <tr>
 <td>param</td>
 <td>CWL Parameter Files</td>
-<td><a href="https://github.com/systemPipeR/sprwfcmp-data">GitHub</a></td>
+<td><a href="https://github.com/systemPipeR/sprwfcmp-param">GitHub</a></td>
 </tr>
 <tr>
 <td>data</td>
@@ -454,7 +454,7 @@ <h2 id="workflow-templates">Workflow Templates</h2>
 
     Last modified
     2026-02-13
-    : <a  href="https://github.com/systemPipeR/systemPipeR.github.io/commit/ddd451c1936c9b29899c53deadaa77aafb4f9e00">Update site content and build (ddd451c1)</a>
+    : <a  href="https://github.com/systemPipeR/systemPipeR.github.io/commit/90188f19b4e04f6c6af7bf57c227ae1ed6d6508b">Update site content and build (90188f19)</a>
 
 </div>
 

public/sitemap.xml

@@ -60,7 +60,7 @@
     <lastmod>2021-04-22T15:46:31-07:00</lastmod>
   </url><url>
     <loc>https://systempipe.org/about/project/</loc>
-    <lastmod>2026-02-13T12:22:02-08:00</lastmod>
+    <lastmod>2026-02-13T12:59:58-08:00</lastmod>
   </url><url>
     <loc>https://systempipe.org/sps/modules/rnaseq/</loc>
     <lastmod>2022-11-03T17:18:58-07:00</lastmod>