Biosoftware for Mac: Difference between revisions
(Latex getting started) |
(DNA software: GCK, CLC) |
||
(11 intermediate revisions by 6 users not shown) | |||
Line 20: | Line 20: | ||
<!-- ####################### --> | <!-- ####################### --> | ||
<!-- | <!-- ROW 1, CELL 1 --> | ||
<!-- ####################### --> | <!-- ####################### --> | ||
|width="30%" class="green3" | | |width="30%" class="green3" | | ||
Line 27: | Line 27: | ||
* general into to [[LaTeX]] | * general into to [[LaTeX]] | ||
* [[Getting started with LaTeX on a Mac]] | * [[Getting started with LaTeX on a Mac]] | ||
* [[Word vs. LaTeX]] side | * [[Word vs. LaTeX]] side by side comparison | ||
* [[LaTeX template for PhD thesis]] | * [[LaTeX template for PhD thesis]] | ||
* [http://www.uoregon.edu/~koch/texshop/obtaining.html TeXShop] (LaTeX editor, free) | * [http://www.uoregon.edu/~koch/texshop/obtaining.html TeXShop] (LaTeX editor, free) | ||
Line 33: | Line 33: | ||
<!-- ####################### --> | <!-- ####################### --> | ||
<!-- | <!-- ROW 1, CELL 2 --> | ||
<!-- ####################### --> | <!-- ####################### --> | ||
|width="30%" class="green2" | | |width="30%" class="green2" | | ||
Line 40: | Line 40: | ||
* [http://bibdesk.sourceforge.net/ BibDesk] (BibTex reference database w PubMed download, free) | * [http://bibdesk.sourceforge.net/ BibDesk] (BibTex reference database w PubMed download, free) | ||
* [[Skim - PDF reader and annotation software]] (free) | * [[Skim - PDF reader and annotation software]] (free) | ||
* | * [[Papers (bibliography software)|Papers]] (bibliography software by MekenTosj, shareware ) | ||
* [http://jabref.sourceforge.net/ JabRef] (Open source reference manager = free) | |||
<!-- ####################### --> | <!-- ####################### --> | ||
<!-- | <!-- ROW 1, CELL 3 --> | ||
<!-- ####################### --> | <!-- ####################### --> | ||
|width="30%" class="green3" | | |width="30%" class="green3" | | ||
Line 50: | Line 51: | ||
=== DNA/RNA === | === DNA/RNA === | ||
* [http://mekentosj.com/enzymex/ EnzymeX] (restriction enzyme analysis + info) | * [http://mekentosj.com/enzymex/ EnzymeX] (restriction enzyme analysis + info) | ||
* | * [http://mekentosj.com/4peaks/ 4peaks] (simple sequence viewer) | ||
* [[ApE - A Plasmid Editor (software review)|ApE - A Plasmid Editor (free, multi-platform)]] | |||
* [[Gene Construction Kit software review|GCK - Gene Construction Kit ($€¥ Mac)]] | |||
* [http://www.clcbio.com/products/clc-sequence-viewer/ CLC Sequence Viewer (free, multi-platform)] | |||
|- | |||
<!-- ####################### --> | |||
<!-- ROW 2, CELL 1 --> | |||
<!-- ####################### --> | |||
|width="30%" class="green2" | | |||
=== Graph/Diagram software === | |||
* Grace (runs on Mac's XWindow) - WYSIWYG 2D plotting tool [http://plasma-gate.weizmann.ac.il/Grace/] | |||
* GraphPad Prism (Mac/Win) - basic biostatistics, curve fitting and graphing [http://www.graphpad.com/prism/Prism.htm] | |||
* IGOR (Mac/Win) - 2D/3D graphs and stats [http://www.wavemetrics.com/] | |||
* KaleidaGraph (Mac/Win) graphing and data analysis [http://www.synergy.com/] | |||
* for more see here [http://www.dmoz.org/Science/Math/Software/Graphing/] | |||
<!-- ####################### --> | |||
<!-- ROW 2, CELL 2 --> | |||
<!-- ####################### --> | |||
|width="30%" class="green3" | | |||
=== Unix (and OS/X!) Bio Developer Tools === | |||
* [http://eclipse.org Eclipse] - Programming environment, editor, etc for Java, Perl, C, ... | |||
* [http://bioperl.org BioPerl] - File conversion, sequence analysis, database searches, graphics, .. | |||
* [http://biopython.org BioPython] - File conversion, sequence analysis, database searches, graphics, .. | |||
* [http://biolib.open-bio.org BioLib] - File conversion, sequence analysis | |||
* [http://www.graphviz.org/ Graphviz] - Text command language for vector graphics. Very good OS/X version too. | |||
<!-- ####################### --> | |||
<!-- ROW 2, CELL 3 --> | |||
<!-- ####################### --> | |||
|width="30%" class="green2" | | |||
=== Add a section === | |||
* add an item | |||
|- | |- | ||
<!-- ####################### --> | <!-- ####################### --> | ||
Line 90: | Line 131: | ||
Mac biosoftware lists | Mac biosoftware lists | ||
* [http://www.apple.com/science/software/lifescience.html Apple's list of life science software] | * [http://www.apple.com/science/software/lifescience.html Apple's list of life science software] | ||
* [http:// | * [http://mackeeper.zeobit.com/mac-encryption mac encryption] powerful multifunctional system utility for Mac OS | ||
General software databases: | General software databases: | ||
* [http://osx.iusethis.com/ i use this], especially [http://osx.iusethis.com/tag/scientific scientific software] | |||
** super useful is the freeware [http://metaquark.de/appfresh/ AppFresh] that works with the [http://osx.iusethis.com/ i use this] website | |||
* [http://www.versiontracker.com/macosx/ versiontracker], esp. [http://www.versiontracker.com/macosx/home-edu/math-scientific Math/Science category] | * [http://www.versiontracker.com/macosx/ versiontracker], esp. [http://www.versiontracker.com/macosx/home-edu/math-scientific Math/Science category] | ||
* add here | * add here | ||
Line 102: | Line 143: | ||
* add link | * add link | ||
=== Tips and tricks === | |||
* [[PPT to PDF on a Mac]] - It is possible to save PDF from any Mac application by printing and then saving the output as a PDF. This page explains how you can save PDFs beyond the typical office printer format. | |||
* Using [http://openoffice.org OpenOffice] you can save any file to wikitext. | |||
|} | |} |
Revision as of 04:12, 10 January 2014
| ||
Text processing
|
Reference management
|
DNA/RNA
|
Graph/Diagram software
|
Unix (and OS/X!) Bio Developer Tools
|
Add a section
|
QuotesMake software that you want to use and that you would want to use often. As long as you are making something that you want to use, then your heart will be in it.
|
Recommended LinksMac biosoftware lists
General software databases:
Topic:
Tips and tricks
|