From 01b0e34a65c14335c89b03b3e5234c7ce1e0aeec Mon Sep 17 00:00:00 2001 From: selva <selvaganz1285@gmail.com> Date: Tue, 8 Nov 2022 15:30:50 +0530 Subject: [PATCH] Added Examples --- docs/source/getting_started/Examples.md | 110 ++++++++++++++++++++++++ 1 file changed, 110 insertions(+) create mode 100644 docs/source/getting_started/Examples.md diff --git a/docs/source/getting_started/Examples.md b/docs/source/getting_started/Examples.md new file mode 100644 index 0000000..559610d --- /dev/null +++ b/docs/source/getting_started/Examples.md @@ -0,0 +1,110 @@ +## EXAMPLES + + +1. Using samtools to view a fastq file with same name as provided in url + + <div class="tab"> + <button class="tablinks" onmouseover="openCity(event, 'Ubuntu:0')">Ubuntu</button> + <button class="tablinks" onmouseover="openCity(event, 'Pacman:0')">Pacman</button> + <button class="tablinks" onmouseover="openCity(event, 'bitia:0')">BiTIA</button> + </div> + + <div id="Ubuntu:0" style="display: block;" class="tabcontent0"> + <div id="termynal" data-termynal> + <span data-ty="input">apt-get install wget samtools</span> + <span data-ty="input">wget https://zenodo.org/record/3736457/files/1_control_18S_2019_minq7%20-%20Copy.fastq</span> + <span data-ty="input">samtools convert 1_control_18S_2019_minq7%20-%20Copy.fastq</span> + </div> + </div> + + <div id="Pacman:0" style="display: none;"class="tabcontent0"> + <div id="termynal1" data-termynal> + <span data-ty="input">pacman -S wget samtools</span> + <span data-ty="input">wget https://zenodo.org/record/3736457/files/1_control_18S_2019_minq7%20-%20Copy.fastq</span> + <span data-ty="input">samtools convert 1_control_18S_2019_minq7%20-%20Copy.fastq</span> + </div> + </div> + + <div id="bitia:0" style="display: none;" class="tabcontent0"> + <div id="termynal2" data-termynal> + <span data-ty="input">bitia run "samtools convert <https://zenodo.org/record/3736457/files/1_control_18S_2019_minq7%20-%20Copy.fastq>"</span> + </div> + </div> + + <div class="clearfix"></div> + + <br> + +2. Using samtools to view a fastq file with different file name as provided in url + + <div class="tab"> + <button class="tablinks" onmouseover="openCity(event, 'Ubuntu:1')">Ubuntu</button> + <button class="tablinks" onmouseover="openCity(event, 'Pacman:1')">Pacman</button> + <button class="tablinks" onmouseover="openCity(event, 'bitia:1')">BiTIA</button> + </div> + + <div id="Ubuntu:1" style="display: block;" class="tabcontent1"> + <div id="termynal3" data-termynal> + <span data-ty="input">apt-get install wget samtools</span> + <span data-ty="input">wget sample.fastq https://zenodo.org/record/3736457/files/1_control_18S_2019_minq7%20-%20Copy.fastq</span> + <span data-ty="input">samtools convert sample.fastq</span> + </div> + </div> + + <div id="Pacman:1" style="display: none;"class="tabcontent1"> + <div id="termynal4" data-termynal> + <span data-ty="input">pacman -S wget samtools</span> + <span data-ty="input">wget sample.fastq https://zenodo.org/record/3736457/files/1_control_18S_2019_minq7%20-%20Copy.fastq</span> + <span data-ty="input">samtools convert sample.fastq</span> + </div> + </div> + + <div id="bitia:1" style="display: none;" class="tabcontent1"> + <div id="termynal5" data-termynal> + <span data-ty="input">bitia run "samtools convert <sample.fastq|https://zenodo.org/record/3736457/files/1_control_18S_2019_minq7%20-%20Copy.fastq>"</span> + </div> + </div> + + + <div class="clearfix"></div> + + <br> + +3. Using fastqc to do a Quality check on a fastq file with same file name as provided in url + <br> + + <div class="tab"> + <button class="tablinks" onmouseover="openCity(event, 'Ubuntu:2')">Ubuntu</button> + <button class="tablinks" onmouseover="openCity(event, 'Pacman:2')">Pacman</button> + <button class="tablinks" onmouseover="openCity(event, 'bitia:2')">BiTIA</button> + </div> + + <div id="Ubuntu:2" style="display: block;" class="tabcontent2"> + <div id="termynal6" data-termynal> + <span data-ty="input">apt-get install wget fastqc</span> + <span data-ty="input">wget https://zenodo.org/record/3736457/files/1_control_18S_2019_minq7%20-%20Copy.fastq</span> + <span data-ty="input">fastqc 1_control_18S_2019_minq7%20-%20Copy.fastq</span> + </div> + </div> + + <div id="Pacman:2" style="display: none;"class="tabcontent2"> + <div id="termynal7" data-termynal> + <span data-ty="input">pacman -S wget fastqc</span> + <span data-ty="input">wget sample.fastq https://zenodo.org/record/3736457/files/1_control_18S_2019_minq7%20-%20Copy.fastq</span> + <span data-ty="input">fastqc 1_control_18S_2019_minq7%20-%20Copy.fastq</span> + </div> + </div> + + <div id="bitia:2" style="display: none;" class="tabcontent2"> + <div id="termynal8" data-termynal> + <span data-ty="input">bitia run "fastqc <https://zenodo.org/record/3736457/files/1_control_18S_2019_minq7%20-%20Copy.fastq>"</span> + </div> + </div> + + + <div class="clearfix"></div> + + +<script type="text/javascript" src="https://raw.githack.com/Ganz1285/termynal/master/termynal.js" data-termynal-container="#termynal|#termynal1|#termynal2|#termynal3|#termynal4|#termynal5|#termynal6|#termynal7|#termynal8"></script> + + -- GitLab