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Update README.md
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GenomicaMicrob authored Sep 1, 2017
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Expand Up @@ -26,12 +26,10 @@ To assemble the pair-end sequences: [pear](https://sco.h-its.org/exelixis/web/so
## Download and install
The best way to get pair-end_cleaner is to clone this repository directly to your linux:

1. Open a terminal and go to your prefered folder.
2. Type git clone `https://github.com/GenomicaMicrob/pair-end_cleaner.git`, this will automatically download the script to a new folder called pair-end_cleaner.
3. Change to the new folder: `cd pair-end_cleaner`.
4. Make the install script executable: `chmod +x pair-end_cleaner.sh`.
5. Copy pair-end_cleaner.sh to an appropiate directory in your linux system, `/usr/bin/` is a good choice to have it available for everyone: `sudo cp pair-end_cleaner.sh /usr/bin/`.
6. Log out and log in in order that execute it.
1. Download the latest [release](https://github.com/GenomicaMicrob/pair-end_cleaner/releases/latest).
2. Make the script executable: `chmod +x pair-end_cleaner.v0.9.5.sh`.
3. Copy pair-end_cleaner.sh to an appropiate directory in your linux system, `/usr/bin/` is a good choice to have it available for everyone: `sudo cp pair-end_cleaner.sh /usr/bin/`.
4. Log out and log in in order that execute it.

## Format of the sequence files
Usually, the Illumina sequencers produce the resulting files in the following format:
Expand Down Expand Up @@ -62,3 +60,5 @@ It will present the following options:
x exit
Just select a number for the region you have sequenced, or x to exit.

The script will run and process each sample, since it might take sometime to complete, you can close the terminal (connection) and the script will continue; if you want to stop the process completly, just type `Ctrl z`.

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