user16866: I'm trying to get a handle on what programs different fields of biology use to run statistical tests and other analyses.

Ex: R, SPSS, SAS, GraphPad / PRISM, MATLAB, Python, MS Excel, PCORD, STATA, etc.

Please answer with:

Your sub-field of biology
What program you think your field overwhelmingly/generally uses.

i.e., what is the "Standard" program for your field?

What program you use

If you share a sub-field / standard with an existing answer, please simply vote/comment. Otherwise add a new answer.
Thanks!

user27381: Field: Microbial Bioprocesses/White Biotechnologies
Standard: Excel or R
What I use: Excel, R or Python

user36209: Field: Neuroscience
Standard: Matlab
What I use: Matlab

user22628: Field: models of the transmission of infectious disease
Standard: Matlab, R
What I use: Matlab, Fortran.

user1486: Field: Phylogeny
Disclaimer: I'm not active in phylogeny any more (I was until 2013), and I didn't use statistics very often.
Standard: I think that statistical tests part of phylogeny inference procedures tend to be implemented in specific phylogeny reconstruction programs. These are usually written in fast languages (usually C/C++, but I know at least a case using OCaml). I've seen also statistical tests in a Python based package (possibly with C/C++ underlying stuff), and I heard about R packages for phylogeny handling.
What I use(d): Python (scipy.stats)

user1306: Field: Bioinformatics (I can speak for genomics, NGS, and systems biology)
Standard: R
What I use: R

user9771: Multiple, so here goes. I assume you don't mind them as a single answer?

Field: Experimental Molecular Biology/Synthetic Biology, & Microbiology
Standard: Excel (sadly). If you can afford it, PRISM.
What I use: R and/or Python

Field: Bioinformatics (Microbial NGS etc.)
Standard: R and/or Python (largely taking over from Perl I think)
What I use: R and Python

Field: Structural Bioinformatics
Standard: Python + C (usually in the form of bespoke software though, e.g. PyMOL)
What I use: Python

user16866: Field: Ecology
Standard: R
What I use: R

16866: <p>I'm trying to get a handle on <strong>what programs different <em>fields</em> of biology use to run statistical tests</strong> and other analyses.</p>

<ul>
<li>Ex: R, SPSS, SAS, GraphPad / PRISM, MATLAB, Python, MS Excel, PCORD, STATA, etc.</li>
</ul>

<p>Please answer with:</p>

<ol>
<li><strong>Your sub-field of biology</strong></li>
<li><p><strong>What program you think your field overwhelmingly/generally uses.</strong></p>

<ul>
<li>i.e., what is the "Standard" program for your field?</li>
</ul></li>
<li><strong>What program you use</strong></li>
</ol>

<p>If you share a sub-field / standard with an existing answer, please simply vote/comment. Otherwise add a new answer.</p>

<p>Thanks!</p>
 27381: <p><strong>Field:</strong> Microbial Bioprocesses/White Biotechnologies</p>

<p><strong>Standard:</strong> Excel or R</p>

<p>What I use: Excel, R or Python</p>
 36209: <p><strong>Field</strong>: Neuroscience</p>

<p><strong>Standard</strong>: Matlab</p>

<p><strong>What I use</strong>: Matlab</p>
 22628: <p>Field: models of the transmission of infectious disease</p>

<p>Standard: Matlab, R</p>

<p>What I use: Matlab, Fortran.</p>
 1486: <p><strong>Field</strong>: Phylogeny</p>

<p>Disclaimer: I'm not active in phylogeny any more (I was until 2013), and I didn't use statistics very often.</p>

<p><strong>Standard</strong>: I think that statistical tests part of phylogeny inference procedures tend to be implemented in specific phylogeny reconstruction programs. These are usually written in fast languages (usually C/C++, but I know at least a case using OCaml). I've seen also statistical tests in a Python based package (possibly with C/C++ underlying stuff), and I heard about R packages for phylogeny handling.</p>

<p>What I use(d): Python (<code>scipy.stats</code>)</p>
 1306: <p><strong>Field:</strong> Bioinformatics (I can speak for genomics, NGS, and systems biology)</p>

<p><strong>Standard:</strong> <a href="https://www.r-project.org/" rel="nofollow noreferrer">R</a></p>

<p>What I use: R</p>
 9771: <p>Multiple, so here goes. I assume you don't mind them as a single answer?</p>

<hr>

<p><strong>Field</strong>: Experimental Molecular Biology/Synthetic Biology, &amp; Microbiology</p>

<p><strong>Standard</strong>: Excel (sadly). If you can afford it, PRISM.</p>

<p>What I use: R and/or Python</p>

<hr>

<p><strong>Field</strong>: Bioinformatics (Microbial NGS etc.)</p>

<p><strong>Standard</strong>: R and/or Python (largely taking over from Perl I think)</p>

<p>What I use: R and Python</p>

<hr>

<p><strong>Field</strong>: Structural Bioinformatics</p>

<p><strong>Standard</strong>: Python + C (usually in the form of bespoke software though, e.g. PyMOL)</p>

<p>What I use: Python</p>
 16866: <p><strong>Field:</strong> Ecology</p>

<p><strong>Standard:</strong>  <a href="https://www.r-project.org/" rel="nofollow noreferrer">R</a></p>

<p>What I use: R</p>
