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Corrected score_genes default in pipeline_ingestion_yml.md #225

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Mar 14, 2024
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Corrected score_genes default in pipeline_ingestion_yml.md #225

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6 changes: 3 additions & 3 deletions docs/yaml_docs/pipeline_ingestion_yml.md
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Expand Up @@ -236,8 +236,8 @@ exclude: exclude these genes from the HVG selection, if they are deemed HV.
<span class="parameter">calc_proportions</span> `String` (comma-separated), Default: hb,mt,rp<br>
Specify what gene proportions you want to calculate for each cell (e.g. mt for mitochondrial).

<span class="parameter">score_genes</span> `String`, Default: MarkersNeutro<br>
Specify what genes should be scored.
<span class="parameter">score_genes</span> `String`, Default: (blank) <br>
Specify what genes should be scored.

Furthermore, there is the possibility to define a cell cycle action:

Expand Down Expand Up @@ -432,4 +432,4 @@ This can help to determine any inconsistencies in staining per channel and other
The maximum value will be set at the value of the 99.5% quantile, applied per feature.
Note that this feature is in the default muon `mu.pp.dsb` code, but manually implemented here.