Mercurial > repos > iuc > scanpy_remove_confounders
diff remove_confounders.xml @ 5:e5fa012d8d93 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scanpy/ commit 6b5d0d6f038ebd0fae5dbca02ada51555518ed85"
| author | iuc |
|---|---|
| date | Mon, 10 Feb 2020 10:17:47 +0000 |
| parents | 5a97db811365 |
| children | c0fab89336d1 |
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--- a/remove_confounders.xml Wed Dec 18 20:53:22 2019 +0000 +++ b/remove_confounders.xml Mon Feb 10 10:17:47 2020 +0000 @@ -156,7 +156,7 @@ inspired by Seurat's `regressOut` function in R. More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.regress_out.html>`__ +<https://icb-scanpy.readthedocs-hosted.com/en/@version@/api/scanpy.pp.regress_out.html>`__ Correct batch effects by matching mutual nearest neighbors, using `pp.mnn_correct` ================================================================================== @@ -167,7 +167,7 @@ Be reminded that it is not advised to use the corrected data matrices for differential expression testing. More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.api.pp.mnn_correct.html>`__ +<https://icb-scanpy.readthedocs-hosted.com/en/@version@/api/scanpy.api.pp.mnn_correct.html>`__ Correct batch effects with ComBat function (`pp.combat`) @@ -176,7 +176,7 @@ Corrects for batch effects by fitting linear models, gains statistical power via an EB framework where information is borrowed across genes. This uses the implementation of ComBat More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.combat.html>`__ +<https://icb-scanpy.readthedocs-hosted.com/en/@version@/api/scanpy.pp.combat.html>`__ ]]></help>