Search help in SeqWiki

flxlex · 05-14-2012, 04:42 AM

Hi,

Wouldn't it be great if people could find a list of programs based on selecting certain properties, such as
- data type (Ilmn, 454, Ion, SOLiD, ...)
- sample type (genomic DNA, amplicon, ...)
- application (metagenomics, assembly, variant calling, ...)
- availability (open source, commercial, ...)

After clicking the appropriate checkboxes, out would come a list of candidate programs. Perhaps this requires a controlled vocabulary for some of the categories for the wiki, but that should be doable?

Lex

ECO · 05-31-2012, 12:23 AM

Hey Lex,

Check this out...there could stand to be some vocab improvement as you guess...but it pretty much works as you requested. Feel free to edit the table syntax also...or switch to "tiles" once you've subset the data as you desire.

http://seqanswers.com/wiki/Software

flxlex · 06-01-2012, 06:45 AM

Brilliant! Very useful. For example, there appear to be 22 assembly programs for 454 data (many more than I would have guessed) and 16 for alignment of 454 data. Perl (69) wins over python (49), and 17 fully or partially commercial packages.

dan · 09-01-2013, 01:48 PM

Quote:

Originally Posted by flxlex

Brilliant! Very useful. For example, there appear to be 22 assembly programs for 454 data (many more than I would have guessed) and 16 for alignment of 454 data. Perl (69) wins over python (49), and 17 fully or partially commercial packages.

How do I 'like' this post ;-)

It's a pretty awesome collection of tools! Many thanks to all the contributors!

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05-14-2012, 04:42 AM	#1
flxlex Moderator Location: Oslo, Norway Join Date: Nov 2008 Posts: 415	Search help in SeqWiki Hi, Wouldn't it be great if people could find a list of programs based on selecting certain properties, such as - data type (Ilmn, 454, Ion, SOLiD, ...) - sample type (genomic DNA, amplicon, ...) - application (metagenomics, assembly, variant calling, ...) - availability (open source, commercial, ...) After clicking the appropriate checkboxes, out would come a list of candidate programs. Perhaps this requires a controlled vocabulary for some of the categories for the wiki, but that should be doable? Lex

05-31-2012, 12:23 AM	#2
ECO --Site Admin-- Location: SF Bay Area, CA, USA Join Date: Oct 2007 Posts: 1,358	Hey Lex, Check this out...there could stand to be some vocab improvement as you guess...but it pretty much works as you requested. Feel free to edit the table syntax also...or switch to "tiles" once you've subset the data as you desire. http://seqanswers.com/wiki/Software

06-01-2012, 06:45 AM	#3
flxlex Moderator Location: Oslo, Norway Join Date: Nov 2008 Posts: 415	Brilliant! Very useful. For example, there appear to be 22 assembly programs for 454 data (many more than I would have guessed) and 16 for alignment of 454 data. Perl (69) wins over python (49), and 17 fully or partially commercial packages.