mirror of
https://github.com/MillironX/sc2-sequencing.git
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42 lines
1.3 KiB
Markdown
42 lines
1.3 KiB
Markdown
# ClearLabs
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This script converts the FASTA tarball that is downloaded through the ClearLabs
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web portal into individual and a collective FASTA file using Cygwin.
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## Usage
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To be run in Cygwin
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```bash
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convert-fastas.sh TARBALL
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```
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## Installation
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This script requires [Cygwin](https://cygwin.com/install.html).
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1. Download and install Cygwin
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1. Select "Just Me" when asked who to install for
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2. Find and add the latest version of the "git" package when prompted
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3. All other default options will work
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2. Open the Cygwin console and use the following commands
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```bash
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git clone https://github.com/MillironX/wphl-bioinformatics.git
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cp wphl-bioinformatics/clearlabs/convert-fastas.sh ~
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chmod +x convert-fastas.sh
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```
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3. Press the Win+R on the keyboard
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4. Type `shell:sendto` and press Enter
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5. Right-click in the newly opened window, and click "New | Shortcut..."
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6. Type `C:\cygwin64\bin\bash.exe` and click Next
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7. Type `Convert FASTA Tarball` or something else memorable and click Finish
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8. Right-click the newly created shortcut and click Properties
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9. In the Target textbox, add a space and `--login convert-fastas.sh` to the
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existing text
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10. Click OK
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An item will now be added to the Right click | Send to menu for FASTA tarballs.
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Once clicked, the extracted tarballs can be found in
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`C:\cygwin64\home\<USERNAME>`.
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