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qiime2-software [2018/05/21 09:59]
aorth
qiime2-software [2018/05/21 10:01] (current)
aorth
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 ====== QIIME2 ====== ====== QIIME2 ======
-QIIME™ (canonically pronounced chime) stands for Quantitative Insights Into Microbial Ecology. QIIME is an open-source bioinformatics pipeline for performing microbiome analysis from raw DNA sequencing data.+QIIME™ (canonically pronounced chime) stands for Quantitative Insights Into Microbial Ecology. QIIME is an open-source bioinformatics pipeline for performing microbiome analysis from raw DNA sequencing data. QIIME2 is a completely new and different version than QIIME1.
  
 ===== Information ===== ===== Information =====
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 $ qiime --help</​code>​ $ qiime --help</​code>​
  
-Qiime2 has 240 dependencies and is extremely tricky to install without the use of [[https://​conda.io/​miniconda.html|Miniconda]]—it is not even published on PyPy anymore, so installing it with pip is not an option. I install Conda somewhere globally so that I can use it to install Qiime2. After the installation is done you don't technically ​*needConda itself, but Qiime2 will need Conda'​s Python so we must keep it around.+Qiime2 has 240 dependencies and is extremely tricky to install without the use of [[https://​conda.io/​miniconda.html|Miniconda]]—it is not even published on PyPy anymore, so installing it with pip is not an option. I install Conda somewhere globally so that I can use it to install Qiime2. After the installation is done you don't technically need Conda itself, but Qiime2 will need Conda'​s Python so we must keep it around. I compared the output ''​env''​ before and after loading the Qiime2 environment with Conda, then used that to create the module file.
qiime2-software.txt · Last modified: 2018/05/21 10:01 by aorth