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transposed](https://images.hindustantimes.com/rf/image_size_630x354/HT/p2/2017/09/21/Pictures/_78c6a162-9e94-11e7-9c3b-8e901839ece0.JPG) in the Python and anndata world* + ![CLR_margins](../img/clr_margins.png) + 2. dsb using [muon's prot processing](https://muon.readthedocs.io/en/latest/api/generated/muon.prot.pp.html). This method is only applicable when you have raw 10x inputs (see [supported input files](https://panpipes-pipelines.readthedocs.io/en/latest/usage/setup_for_qc_mm.html#supported-input-filetypes)). ## ATAC From 99e96c10ebbd1bf12e7203f10f285a40ee075be8 Mon Sep 17 00:00:00 2001 From: Lilly Date: Sat, 9 Mar 2024 18:32:46 +0100 Subject: [PATCH 2/3] Decreased plot width --- docs/usage/normalization_methods.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/usage/normalization_methods.md b/docs/usage/normalization_methods.md index 293e669e..dfea989f 100644 --- a/docs/usage/normalization_methods.md +++ b/docs/usage/normalization_methods.md @@ -18,7 +18,7 @@ Additionally, the normalized data can be scaled using scanpy's [sc.pp.scale](htt *if you come from R, please note that the [margins are transposed](https://images.hindustantimes.com/rf/image_size_630x354/HT/p2/2017/09/21/Pictures/_78c6a162-9e94-11e7-9c3b-8e901839ece0.JPG) in the Python and anndata world* - ![CLR_margins](../img/clr_margins.png) + 2. dsb using [muon's prot processing](https://muon.readthedocs.io/en/latest/api/generated/muon.prot.pp.html). This method is only applicable when you have raw 10x inputs (see [supported input files](https://panpipes-pipelines.readthedocs.io/en/latest/usage/setup_for_qc_mm.html#supported-input-filetypes)). From c25cd0900d45907539fea92adfb2ab498d03c7ba Mon Sep 17 00:00:00 2001 From: Lilly Date: Sat, 9 Mar 2024 18:41:06 +0100 Subject: [PATCH 3/3] Fixed image link --- docs/usage/normalization_methods.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/usage/normalization_methods.md b/docs/usage/normalization_methods.md index dfea989f..8f1c0cb7 100644 --- a/docs/usage/normalization_methods.md +++ b/docs/usage/normalization_methods.md @@ -18,7 +18,7 @@ Additionally, the normalized data can be scaled using scanpy's [sc.pp.scale](htt *if you come from R, please note that the [margins are transposed](https://images.hindustantimes.com/rf/image_size_630x354/HT/p2/2017/09/21/Pictures/_78c6a162-9e94-11e7-9c3b-8e901839ece0.JPG) in the Python and anndata world* - + 2. dsb using [muon's prot processing](https://muon.readthedocs.io/en/latest/api/generated/muon.prot.pp.html). This method is only applicable when you have raw 10x inputs (see [supported input files](https://panpipes-pipelines.readthedocs.io/en/latest/usage/setup_for_qc_mm.html#supported-input-filetypes)).