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Update raw_data_processing.md
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- update link to CB permit file
- update creating condo env for Apple silicon-based devices
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zimea authored Feb 6, 2024
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4 changes: 2 additions & 2 deletions jupyter-book/introduction/raw_data_processing.md
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Expand Up @@ -453,7 +453,7 @@ To do this, you can replace the above commands with the following (instructions
from [here](https://github.com/Haydnspass/miniforge#rosetta-on-mac-with-apple-silicon-hardware)):
```bash
CONDA_SUBDIR=osx-64 conda create -n af -y -c bioconda simpleaf # create a new environment
CONDA_SUBDIR=osx-64 conda create -n af -y -c bioconda -c conda-forge simpleaf # create a new environment
conda activate af
conda env config vars set CONDA_SUBDIR=osx-64 # subsequent commands use intel packages
````
Expand All @@ -477,7 +477,7 @@ ref_dir="toy_human_ref"

# Fetch CB permit list
## the right chevron (>) redirects the STDOUT to a file.
wget -qO- https://raw.githubusercontent.com/10XGenomics/cellranger/master/lib/python/cellranger/barcodes/3M-february-2018.txt.gz | gunzip - > 3M-february-2018.txt
wget -qO- https://github.com/f0t1h/3M-february-2018/raw/master/3M-february-2018.txt.gz | gunzip - > 3M-february-2018.txt

```

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