SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
RNA-seq for mixed population phdveg RNA Sequencing 1 02-06-2012 01:46 AM
Asian population index reference foxyg Bioinformatics 0 06-18-2010 09:59 AM
Population RNA-Seq baohua100 RNA Sequencing 0 07-27-2009 02:14 PM
population genetics parameter estimation of solexa population sequencing baohua100 Bioinformatics 1 07-16-2008 09:53 AM

Reply
 
Thread Tools
Old 02-23-2012, 11:30 PM   #1
lilimoon2010
Junior Member
 
Location: any where

Join Date: Feb 2012
Posts: 3
Default population software

I want to ask computation biology expert about genetic population software:
I want to ask about population genetics software , what is the data input file is common for these software ???
lilimoon2010 is offline   Reply With Quote
Old 02-24-2012, 03:05 AM   #2
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,540
Default

Why the big font?

I think GenPop's file format is quite widely used. There is a whole module in Biopython for this kind of thing, see http://biopython.org/wiki/PopGen
maubp is offline   Reply With Quote
Old 02-24-2012, 07:11 AM   #3
lilimoon2010
Junior Member
 
Location: any where

Join Date: Feb 2012
Posts: 3
Default

Thanks maubp for ur answer...I want to create to do small database using Access (microsoft office ) that have the same function of genetic population softwares that have common input data , but not sure if this type of work will work or not.
lilimoon2010 is offline   Reply With Quote
Old 02-24-2012, 07:34 AM   #4
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,540
Default

I doubt using Microsoft Access is a good idea. For a start it is OS specific (Windows only, not even part of Microsoft Office for Mac), so you won't be able to use it with Linux and most bioinformatics tools are focused on Linux.

Last edited by maubp; 02-24-2012 at 08:28 AM. Reason: typo
maubp is offline   Reply With Quote
Old 02-24-2012, 08:24 AM   #5
peromhc
Senior Member
 
Location: Durham, NH

Join Date: Sep 2009
Posts: 108
Default if it were only that easy..

one of the much frustrating things about pop gen work is the fact that there is no consensus re: input file format.

Anyway, what types of analyses are you thinking about? What is the raw data (e.g. SNP's, sequence data, microsatellites, AFLP's, etc)? What programs are you interested in using?

P.S. I'll second Peters recommendation about staying away from Access.
peromhc is offline   Reply With Quote
Old 02-25-2012, 09:26 AM   #6
lilimoon2010
Junior Member
 
Location: any where

Join Date: Feb 2012
Posts: 3
Default

why I have to be staying away of Access ,, I'm familiar with this program and I think it's suitable for every thing.
lilimoon2010 is offline   Reply With Quote
Old 02-25-2012, 09:47 AM   #7
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,540
Default

I disagree with you strongly, Microsoft Acess is NOT suitable for everything!

Apart from the fact it only works on Windows, it does not scale well with very large datasets, and as I recall does not work so well with multiple concurrent access. Microsoft themselves don't try to sell it as an "industrial strength" database. I've used Acess myself in the past, and it does have some strengths - if it is what you know and good enough, maybe it will suffice for you in the short term..
maubp is offline   Reply With Quote
Old 02-25-2012, 12:25 PM   #8
peromhc
Senior Member
 
Location: Durham, NH

Join Date: Sep 2009
Posts: 108
Default

however tempting a Microsoft vs. the world flameware is, maybe lillimoon can provide just a little more detail about what he/she wants to do.

Specifically, what types of analyses are you thinking about? What is the raw data (e.g. SNP's, sequence data, microsatellites, AFLP's, etc)? What programs are you interested in using?
peromhc is offline   Reply With Quote
Reply

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 10:52 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2018, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO