[Biococoa-dev] Reading blast formatted files

[Koen van der Drift]

Hi Davide,

Welcome to BioCocoa! It would be great if the framework will be used in a proteomics app. 

Regarding the blast input. Right now we don't the possibility to read the specific NCBI database formats. However, it would be a welcome addition. What I understand, formatdb is a standalone CLI app, correct? We need to look into if we can add this (because of possible license issues). Otherwise, we can write our own class, based on the formatdb source code. I encourage you to look into that possibility, we can help here to convert it to Objective-C and Cocoa.

cheers,

- Koen.



-----Original Message-----
>From: Davide Cittaro <davide.cittaro at ifom-ieo-campus.it>
>Sent: Aug 10, 2006 11:32 AM
>To: BioCocoa Mailinglist <biococoa-dev at bioinformatics.org>
>Subject: [Biococoa-dev] Reading blast formatted files
>
>Hi there, I'm new to BioCocoa (well, I've discovered it yesterday)  
>and pretty new to Cocoa programming. I would like to start using this  
>framework for some proteomics app.
>I would like to know if there is a way to read database formatted for  
>NCBI blast with formatdb. Ok, I'm also going to read the documentation!
>
>d
>/*
>Davide Cittaro
>HPC and Bioinformatics Systems @ Informatics Core
>
>IFOM - Istituto FIRC di Oncologia Molecolare
>via adamello, 16
>20139 Milano
>Italy
>
>tel.: +39(02)574303355
>e-mail: davide.cittaro at ifom-ieo-campus.it
>*/
>
>
>