openpipelines-bio · dorien-er · Jul 20, 2026
diff --git a/src/annotate/celltypist/config.vsh.yaml b/src/annotate/celltypist/config.vsh.yaml
@@ -5,8 +5,6 @@ description: Automated cell type annotation tool for scRNA-seq datasets on the b
 authors:
   - __merge__: /src/authors/jakub_majercik.yaml
     roles: [ author ]
-  - __merge__: /src/authors/weiwei_schultz.yaml
-    roles: [ contributor ]
 
 argument_groups:
   - name: Inputs

diff --git a/src/annotate/scanvi/config.vsh.yaml b/src/annotate/scanvi/config.vsh.yaml
@@ -7,11 +7,9 @@ description: |
 
 authors:
   - __merge__: /src/authors/dorien_roosen.yaml
-    roles: [ maintainer ]
+    roles: [ author ]
   - __merge__: /src/authors/jakub_majercik.yaml
     roles: [ author ]
-  - __merge__: /src/authors/weiwei_schultz.yaml
-    roles: [ contributor ]
 argument_groups:
   - name: Inputs
     arguments:

diff --git a/src/annotate/singler/config.vsh.yaml b/src/annotate/singler/config.vsh.yaml
@@ -9,8 +9,6 @@ description: |
 authors:
   - __merge__: /src/authors/dorien_roosen.yaml
     roles: [ author ]
-  - __merge__: /src/authors/weiwei_schultz.yaml
-    roles: [ contributor ]
 
 argument_groups:
   - name: Inputs

diff --git a/src/authors/angela_pisco.yaml b/src/authors/angela_pisco.yaml
@@ -1,14 +1,6 @@
 name: Angela Oliveira Pisco
 info:
-  role: Contributor
   links:
     github: aopisco
     orcid: "0000-0003-0142-2355"
     linkedin: aopisco
-  organizations:
-    - name: Insitro
-      href: https://insitro.com
-      role: Director of Computational Biology
-    - name: Open Problems
-      href: https://openproblems.bio
-      role: Core Member
diff --git a/src/authors/dorien_roosen.yaml b/src/authors/dorien_roosen.yaml
@@ -1,11 +1,6 @@
 name: Dorien Roosen
 info:
-  role: Core Team Member
   links:
-    email: dorien@data-intuitive.com
     github: dorien-er
+    orcid: 0000-0002-6261-8151
     linkedin: dorien-roosen
-  organizations:
-    - name: Data Intuitive
-      href: https://www.data-intuitive.com
-      role: Data Scientist
diff --git a/src/authors/dries_de_maeyer.yaml b/src/authors/dries_de_maeyer.yaml
@@ -1,11 +1,5 @@
 name: Dries De Maeyer
 info:
-  role: Core Team Member
   links:
-    email: ddemaeyer@gmail.com
     github: ddemaeyer
     linkedin: dries-de-maeyer-b46a814
-  organizations:
-    - name: Janssen Pharmaceuticals
-      href: https://www.janssen.com
-      role: Principal Scientist
diff --git a/src/authors/dries_schaumont.yaml b/src/authors/dries_schaumont.yaml
@@ -1,12 +1,5 @@
 name: Dries Schaumont
 info:
-  role: Core Team Member
   links:
-    email: dries@data-intuitive.com
     github: DriesSchaumont
     orcid: "0000-0002-4389-0440"
-    linkedin: dries-schaumont
-  organizations:
-    - name: Data Intuitive
-      href: https://www.data-intuitive.com
-      role: Data Scientist
diff --git a/src/authors/elizabeth_mlynarski.yaml b/src/authors/elizabeth_mlynarski.yaml
diff --git a/src/authors/isabelle_bergiers.yaml b/src/authors/isabelle_bergiers.yaml
@@ -1,10 +1,5 @@
 name: Isabelle Bergiers 
 info:
-  role: Contributor
   links:
     github: Isabelle-b
     orcid: 0000-0001-9622-7960
-  organizations:
-    - name: Janssen Pharmaceuticals
-      href: https://www.janssen.com
-      role: Scientist OMICS Technology
diff --git a/src/authors/jakub_majercik.yaml b/src/authors/jakub_majercik.yaml
@@ -1,11 +1,5 @@
 name: Jakub Majercik
 info:
-  role: Contributor
   links:
-    email: jakub@data-intuitive.com
     github: jakubmajercik
     linkedin: jakubmajercik
-  organizations:
-    - name: Data Intuitive
-      href: https://www.data-intuitive.com
-      role: Bioinformatics Engineer
diff --git a/src/authors/kai_waldrant.yaml b/src/authors/kai_waldrant.yaml
@@ -1,15 +1,6 @@
 name: Kai Waldrant
 info:
-  role: Contributor
   links:
-    email: kai@data-intuitive.com
     github: KaiWaldrant
     orcid: "0009-0003-8555-1361"
     linkedin: kaiwaldrant
-  organizations:
-    - name: Data Intuitive
-      href: https://www.data-intuitive.com
-      role: Bioinformatician
-    - name: Open Problems
-      href: https://openproblems.bio
-      role: Contributor
diff --git a/src/authors/luke_zappia.yaml b/src/authors/luke_zappia.yaml
@@ -1,12 +1,6 @@
 name: Luke Zappia
 info:
-  role: Contributor
   links:
-    email: luke@data-intuitive.com
     github: lazappi
     orcid: 0000-0001-7744-8565
     linkedin: lazappi
-  organizations:
-    - name: Data Intuitive
-      href: https://www.data-intuitive.com
-      role: Data Science Engineer
diff --git a/src/authors/malte_luecken.yaml b/src/authors/malte_luecken.yaml
@@ -1,16 +1,6 @@
 name: Malte D. Luecken
 info:
-  role: Core Team Member
   links:
-    email: malte.luecken@helmholtz-muenchen.de
     github: LuckyMD
     orcid: "0000-0001-7464-7921"
     linkedin: malte-l%C3%BCcken-b8b21049
-    twitter: MDLuecken
-  organizations:
-    - name: Helmholtz Munich
-      href: https://www.helmholtz-munich.de
-      role: Group Leader
-    - name: Open Problems
-      href: https://openproblems.bio
-      role: Core Member
diff --git a/src/authors/marijke_van_moerbeke.yaml b/src/authors/marijke_van_moerbeke.yaml
@@ -1,11 +1,6 @@
 name: Marijke Van Moerbeke
 info:
-  role: Contributor
   links:
     github: mvanmoerbeke
     orcid: 0000-0002-3097-5621
     linkedin: marijke-van-moerbeke-84303a34
-  organizations:
-    - name: OpenAnalytics
-      href: https://www.openanalytics.eu
-      role: Statistical Consultant
diff --git a/src/authors/matthias_beyens.yaml b/src/authors/matthias_beyens.yaml
@@ -1,12 +1,6 @@
 name: Matthias Beyens
 info:
-  role: Contributor
   links:
     github: MatthiasBeyens
     orcid: "0000-0003-3304-0706"
-    email: matthias.beyens@gmail.com
     linkedin: mbeyens
-  organizations:
-    - name: Janssen Pharmaceuticals
-      href: https://www.janssen.com
-      role: Principal Scientist
diff --git a/src/authors/mauro_saporita.yaml b/src/authors/mauro_saporita.yaml
@@ -1,11 +1,5 @@
 name: Mauro Saporita
 info:
-  role: Contributor
   links:
-    email: maurosaporita@gmail.com
     github: mauro-saporita
     linkedin: mauro-saporita-930b06a5
-  organizations:
-    - name: Ardigen
-      href: https://ardigen.com
-      role: Lead Nextflow Developer
diff --git a/src/authors/povilas_gibas.yaml b/src/authors/povilas_gibas.yaml
@@ -1,11 +1,5 @@
 name: Povilas Gibas
 info:
-  role: Contributor
   links:
-    email: povilasgibas@gmail.com
     github: PoGibas
     linkedin: povilas-gibas
-  organizations:
-    - name: Ardigen
-      href: https://ardigen.com
-      role: Bioinformatician
diff --git a/src/authors/robrecht_cannoodt.yaml b/src/authors/robrecht_cannoodt.yaml
@@ -1,15 +1,6 @@
 name: Robrecht Cannoodt
 info:
-  role: Core Team Member
   links:
-    email: robrecht@data-intuitive.com
     github: rcannood
     orcid: "0000-0003-3641-729X"
     linkedin: robrechtcannoodt
-  organizations:
-    - name: Data Intuitive
-      href: https://www.data-intuitive.com
-      role: Data Science Engineer
-    - name: Open Problems
-      href: https://openproblems.bio
-      role: Core Member
diff --git a/src/authors/samuel_d_souza.yaml b/src/authors/samuel_d_souza.yaml
@@ -1,10 +1,5 @@
 name: Samuel D'Souza
 info:
-  role: Contributor
   links:
     github: srdsam
     linkedin: samuel-d-souza-887023150/
-  organizations:
-    - name: Chan Zuckerberg Biohub
-      href: https://www.czbiohub.org
-      role: Data Engineer
diff --git a/src/authors/sarah_ouologuem.yaml b/src/authors/sarah_ouologuem.yaml
@@ -1,10 +1,5 @@
 name: Sarah Ouologuem
 info:
-  role: Contributor
   links:
     github: SarahOuologuem
     orcid: 0009-0005-3398-1700
-  organizations:
-    - name: Helmholtz Munich
-      href: https://www.helmholtz-munich.de
-      role: Student Assistant
diff --git a/src/authors/toni_verbeiren.yaml b/src/authors/toni_verbeiren.yaml
@@ -1,10 +1,5 @@
 name: Toni Verbeiren
 info:
-  role: Core Team Member
   links:
     github: tverbeiren
     linkedin: verbeiren
-  organizations:
-  - name: Data Intuitive
-    href: https://www.data-intuitive.com
-    role: Data Scientist and CEO
diff --git a/src/authors/vladimir_shitov.yaml b/src/authors/vladimir_shitov.yaml
@@ -1,12 +1,6 @@
 name: Vladimir Shitov
 info:
-  role: Contributor
   links:
-    email: vladimir.shitov@helmholtz-muenchen.de
     github: vladimirshitov
     orcid: "0000-0002-1960-8812"
     linkedin: vladimir-shitov-9a659513b
-  organizations:
-    - name: Helmholtz Munich
-      href: https://www.helmholtz-munich.de
-      role: PhD Candidate
diff --git a/src/authors/weiwei_schultz.yaml b/src/authors/weiwei_schultz.yaml
diff --git a/src/authors/xichen_wu.yaml b/src/authors/xichen_wu.yaml
@@ -1,11 +1,6 @@
 name: Xichen Wu
 info:
-  role: Contributor
   links:
     github: wxicu
     linkedin: xichen-wu
     orcid: 0009-0008-2168-4508
-  organizations:
-    - name: Helmholtz Munich
-      href: https://www.helmholtz-munich.de
-      role: Student Assistant
diff --git a/src/cluster/leiden/config.vsh.yaml b/src/cluster/leiden/config.vsh.yaml
@@ -13,7 +13,7 @@ description: |
   [Wolf18]: Wolf et al. (2018), Scanpy: large-scale single-cell gene expression data analysis, Genome Biology.  
 authors:
   - __merge__: /src/authors/dries_de_maeyer.yaml
-    roles: [ maintainer ]
+    roles: [ author ]
 arguments:
   # input
   - name: "--input"

diff --git a/src/compression/compress_h5mu/config.vsh.yaml b/src/compression/compress_h5mu/config.vsh.yaml
@@ -5,7 +5,7 @@ description: |
   Compress a MuData file. 
 authors:
   - __merge__: /src/authors/dries_schaumont.yaml
-    roles: [ maintainer ]
+    roles: [ author ]
 arguments:
   - name: "--input"
     alternatives: ["-i"]

diff --git a/src/convert/from_10xh5_to_h5mu/config.vsh.yaml b/src/convert/from_10xh5_to_h5mu/config.vsh.yaml
@@ -5,7 +5,7 @@ description: |
   Converts a 10x h5 into an h5mu file.
 authors:
   - __merge__: /src/authors/robrecht_cannoodt.yaml
-    roles: [ maintainer ]
+    roles: [ author ]
 argument_groups:
   - name: Inputs
     arguments:

diff --git a/src/convert/from_10xmtx_to_h5mu/config.vsh.yaml b/src/convert/from_10xmtx_to_h5mu/config.vsh.yaml
@@ -5,7 +5,7 @@ description: |
   Converts a 10x mtx into an h5mu file.
 authors:
   - __merge__: /src/authors/robrecht_cannoodt.yaml
-    roles: [ maintainer ]
+    roles: [ author ]
 arguments:
   - name: "--input"
     alternatives: ["-i"]

diff --git a/src/convert/from_bd_to_10x_molecular_barcode_tags/config.vsh.yaml b/src/convert/from_bd_to_10x_molecular_barcode_tags/config.vsh.yaml
@@ -5,7 +5,7 @@ description: |
   Convert the molecular barcode sequence SAM tag from BD format (MA) to 10X format (UB).
 authors:
   - __merge__: /src/authors/dries_schaumont.yaml
-    roles: [ maintainer ]
+    roles: [ author ]
 arguments:
   - name: "--input"
     alternatives: ["-i"]

diff --git a/src/convert/from_bdrhap_to_h5mu/config.vsh.yaml b/src/convert/from_bdrhap_to_h5mu/config.vsh.yaml
@@ -5,7 +5,7 @@ description: |
   Convert the output of a BD Rhapsody pipeline v2.x to a MuData h5 file.
 authors:
   - __merge__: /src/authors/dorien_roosen.yaml
-    roles: [ author, maintainer ]
+    roles: [ author ]
   - __merge__: /src/authors/robrecht_cannoodt.yaml
     roles: [ author ]
 argument_groups:

diff --git a/src/convert/from_cellranger_multi_to_h5mu/config.vsh.yaml b/src/convert/from_cellranger_multi_to_h5mu/config.vsh.yaml
@@ -19,7 +19,7 @@ description: |
   Currently does not allow parsing the output from cell barcode demultiplexing.
 authors:
   - __merge__: /src/authors/dries_schaumont.yaml
-    roles: [ maintainer ]
+    roles: [ author ]
 arguments:
   - name: "--input"
     alternatives: ["-i"]

diff --git a/src/convert/from_h5ad_to_h5mu/config.vsh.yaml b/src/convert/from_h5ad_to_h5mu/config.vsh.yaml
@@ -5,7 +5,7 @@ description: |
   Converts a single layer h5ad file into a single MuData object
 authors:
   - __merge__: /src/authors/dries_de_maeyer.yaml
-    roles: [ maintainer ]
+    roles: [ author ]
 arguments:
   - name: "--input"
     alternatives: ["-i"]

diff --git a/src/convert/from_h5ad_to_seurat/config.vsh.yaml b/src/convert/from_h5ad_to_seurat/config.vsh.yaml
@@ -5,7 +5,7 @@ description: |
   Converts an h5ad file into a Seurat file.
 authors:
   - __merge__: /src/authors/robrecht_cannoodt.yaml
-    roles: [ author, maintainer ]
+    roles: [ author ]
 arguments:
   - name: "--input"
     alternatives: ["-i"]

diff --git a/src/convert/from_h5mu_or_h5ad_to_seurat/config.vsh.yaml b/src/convert/from_h5mu_or_h5ad_to_seurat/config.vsh.yaml
@@ -5,7 +5,7 @@ description: |
   Converts an h5ad file or a single modality of an h5mu file into a Seurat file.
 authors:
   - __merge__: /src/authors/dorien_roosen.yaml
-    roles: [ author, maintainer ]
+    roles: [ author ]
 arguments:
   - name: "--input"
     alternatives: ["-i"]