[Biopython] python advice needed

[George Devaniranjan]

I wouldn't worry about it Csaba -it will come in time. I started in Python
from C and at the beginning wrote "function style" code. After a "long"
time "need" made it necessary to start with classes and I use both.

As for the code looking "good" to a programmer, sorry if I sound cynical
but I would use an "amateur" code than a "professional" as I often find the
latter's efforts harder to decipher (even with comments) than an "amateur's"
attempt.

Good luck.


On Tue, Apr 15, 2014 at 10:58 AM, Csaba Kiss <csaba.kiss at lanl.gov> wrote:

> Hi!
> I need some advice how to get better in python. I have written a software
> package to analyze antibody deep sequencing data. This was my first
> experience with python and I am not a programmer. The end result works,
> however, if a professional coder looks at the scripts, it is obvious that
> it was written by an amateur. I am planning to re-write the code into a
> better format that is extendable and more user and coder friendly. At the
> moment the script only relies on biopython to get the sequences and quality
> values out of sff and fastq files, the rest is custom written. I would like
> to rely more on biopython and also perhaps extend biopython with new
> features.
> The problem I am having is object oriented python and classes. I
> understand the concept of both, but it's completely different to actually
> use it. I would like to ask help from scientist who are in a similar
> situation, as myself. I am a molecular biologist with interest in coding,
> but little background. Do you have any good tutorials books about python
> classes and OOP? For example, when I learned python I found the Google
> python class, extremely valuable. I practically looked at the videos and
> solved the problems and that sent me on my way to python:
> https://developers.google.com/edu/python/?csw=1
>
> Any help would be appreciated:
> Csaba
>
> --
> Best Regards:
> Csaba Kiss PhD, MSc, BSc
> TA-43, HRL-1, MS888
> Los Alamos National Laboratory
> Work: 1-505-667-9898
> Cell: 1-505-920-5774
>
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