SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
Newbie to MiSeq, QIIME workflow question rc630 Illumina/Solexa 2 01-15-2016 07:34 PM
bioinformatics workstation configuration sebl Bioinformatics 2 11-02-2014 05:53 AM
How to use QIIME process MiSeq 16s data? zhaopeihua Metagenomics 8 07-05-2014 03:36 AM
Analysing MiSeq data with SureCall rcran Illumina/Solexa 0 04-24-2014 08:29 AM
Low budget workstation for analysing bacterial Illumina/454 sequencing data shenge Bioinformatics 3 10-17-2013 09:29 AM

Reply
 
Thread Tools
Old 09-17-2016, 04:28 AM   #1
Sama Kalyana Chakravarthy
Junior Member
 
Location: Hyderabad, India

Join Date: Sep 2016
Posts: 2
Default Workstation configuration for analysing Illumina MiSeq data using QIIME

Hi, we are looking for gut microbiome by targeting V3V4 and ITS2 regions through Illumina-MiSeq platform and would like to analyse the data using QIIME and other bioinformatics pipelines. Our data consists of 500,000 to 800,000 reads per sample. The comparative analysis would range from 40 to 100 samples (maximum). In this regard, it would be grateful, if someone tell us the suitable configuration (RAM, hard disk space, processor, number of cores, number of threads etc) for buying the workstation.
Sama Kalyana Chakravarthy is offline   Reply With Quote
Old 09-17-2016, 09:52 AM   #2
GenoMax
Senior Member
 
Location: East Coast USA

Join Date: Feb 2008
Posts: 6,814
Default

Are you working within a certain budget or is that not a consideration?

You will find several workstation threads here (and elsewhere on the net) and most of those recommendations should work well for you. In general try to maximize the RAM, get a solid state drive for OS, go with the second or third fastest processor(s) you can afford (not much gain in getting the top of the line/most expensive CPU) and finally as much spinning disk as you can fit in your remaining budget.
GenoMax is offline   Reply With Quote
Old 09-18-2016, 11:50 PM   #3
Sama Kalyana Chakravarthy
Junior Member
 
Location: Hyderabad, India

Join Date: Sep 2016
Posts: 2
Default Minimum configuration required for analyzing MiSeq data (by V3V4, ITS2) on QIIME

Hi GenoMax, thankyou for your reply. I would like to know the minimum configuration required for analyzing the data which I have posted earlier, so that I can plan for a workstation within our budget accordingly. [Whether 32 GB RAM, Intelģ Coreô i7-6700 CPU @ 3.40GHz ◊ 8 processor (http://ark.intel.com/products/88196/...up-to-4_00-GHz) , 1 TB hard disk space are sufficient and optimal for such analysis?, if higher configuration is required, what will you suggest?].
Sama Kalyana Chakravarthy 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 04:24 PM.


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