Home Accessibility Courses Twitter The Mouth Facebook Resources Site Map About Us Contact
 
For 2021 - online Python 3 training - see ((here)).

Our plans were to retire in summer 2020 and see the world, but Coronavirus has lead us into a lot of lockdown programming in Python 3 and PHP 7.
We can now offer tailored online training - small groups, real tutors - works really well for groups of 4 to 14 delegates. Anywhere in the world; course language English.

Please ask about private 'maintenance' training for Python 2, Tcl, Perl, PHP, Lua, etc.
DNA to Amino Acid - a sample Perl script

A really rewarding course this week - Perl programming, for a dozen bright delegates in the bioinformatics field - the people who have defined the human code as billions of C A T and Gs and are then fuzzy matching against that human code to help in medical research. I hope I am forgiven for that simplistic explanation - THEY are the experts at the algorithms, not me. On a course such as this we add their knowledge of the data to my Perl and come up with a glue that is greater than the sum of the components.

The C A T and G letters go together in groups of 3 to make up Amino Acids ... of which there are 24. A hash is a very good way to set up and use this data, and a regular expression substitute is a short (but it must be admitted inefficient) way of translating 3 at a time. Of course, you don't know where in the sequence to start, so there are three possible strings ... see the sample program [here].

I'm sitting in Edinburgh Waverley station this evening, awaiting the sleeper train back to London. Home, midmorning tomorrow. It's been a long week too ...
(written 2011-06-24)

 
Associated topics are indexed as below, or enter http://melksh.am/nnnn for individual articles
P212 - Perl - More on Character Strings
  [453] Commenting Perl regular expressions - (2005-09-30)
  [583] Remember to process blank lines - (2006-01-31)
  [586] Perl Regular Expressions - finding the position and length of the match - (2006-02-02)
  [597] Storing a regular expression in a perl variable - (2006-02-09)
  [608] Don't expose your regular expressions - (2006-02-15)
  [737] Coloured text in a terminal from Perl - (2006-05-29)
  [928] C++ and Perl - why did they do it THAT way? - (2006-11-16)
  [943] Matching within multiline strings, and ignoring case in regular expressions - (2006-11-25)
  [1222] Perl, the substitute operator s - (2007-06-08)
  [1230] Commenting a Perl Regular Expression - (2007-06-12)
  [1251] Substitute operator / modifiers in Perl - (2007-06-28)
  [1305] Regular expressions made easy - building from components - (2007-08-16)
  [1336] Ignore case in Regular Expression - (2007-09-08)
  [1510] Handling Binary data (.gif file example) in Perl - (2008-01-17)
  [1727] Equality and looks like tests - Perl - (2008-07-29)
  [1735] Finding words and work boundaries (MySQL, Perl, PHP) - (2008-08-03)
  [1947] Perl substitute - the e modifier - (2008-12-16)
  [2230] Running a piece of code is like drinking a pint of beer - (2009-06-11)
  [2379] Making variables persistant, pretending a database is a variable and other Perl tricks - (2009-08-27)
  [2657] Want to do a big batch edit? Nothing beats Perl! - (2010-03-01)
  [2801] Binary data handling with unpack in Perl - (2010-06-10)
  [2834] Teaching examples in Perl - third and final part - (2010-06-27)
  [2874] Unpacking a Perl string into a list - (2010-07-16)
  [2877] Further more advanced Perl examples - (2010-07-19)
  [2993] Arrays v Lists - what is the difference, why use one or the other - (2010-10-10)
  [3059] Object Orientation in an hour and other Perl Lectures - (2010-11-18)
  [3100] Looking ahead and behind in Regular Expressions - double matching - (2010-12-23)
  [3322] How much has Perl (and other languages) changed? - (2011-06-10)
  [3411] Single and double quotes strings in Perl - what is the difference? - (2011-08-30)
  [3546] The difference between dot (a.k.a. full stop, period) and comma in Perl - (2011-12-09)
  [3630] Serialsing and unserialising data for storage and transfer in Perl - (2012-02-28)
  [3650] Possessive Regular Expression Matching - Perl, Objective C and some other languages - (2012-03-12)
  [3707] Converting codons via Amino Acids to Proteins in Perl - (2012-04-25)
  [3927] First match or all matches? Perl Regular Expressions - (2012-11-19)
  [4452] Binary data handling - Python and Perl - (2015-03-09)

P050 - Perl - General
  [116] The next generation of programmer - (2004-11-13)
  [400] New in the shops - (2005-08-01)
  [743] How to debug a Perl program - (2006-06-04)
  [1750] Glorious (?) 12th August - what a Pe(a)rl! - (2008-08-12)
  [1897] Keeping on an even keel - (2008-11-21)
  [2228] Where do I start when writing a program? - (2009-06-11)
  [2242] So what is this thing called Perl that I keep harping on about? - (2009-06-15)
  [2374] Lead characters on Perl variable names - (2009-08-24)
  [2504] Learning to program in ... - (2009-11-15)
  [2736] Perl Course FAQ - (2010-04-23)
  [2783] The Perl Survey - (2010-05-27)
  [2825] Perl course - is it tailored to Linux, or Microsoft Windows? - (2010-06-25)
  [2971] Should the public sector compete with businesses? and other deep questions - (2010-09-26)
  [3093] How many toilet rolls - hotel inventory and useage - (2010-12-18)
  [3407] Perl - a quick reminder and revision. Test yourself! - (2011-08-26)
  [3823] Know Python or PHP? Want to learn Perl too? - (2012-07-31)
  [3902] Shell - Grep - Sed - Awk - Perl - Python - which to use when? - (2012-10-22)
  [3911] How well do you know Perl and / or Python? - (2012-11-04)
  [4296] Polishing the Perl courses - updated training - (2014-09-17)
  [4301] Perl - still a very effective language indeed for extracting and reporting - (2014-09-20)


Back to
Comparing Alloa and Melksham - stations and services
Previous and next
or
Horse's mouth home
Forward to
Honesty and a friendly welcome goes a long way
Some other Articles
Efficient travel - from Melsksham to Edinburgh by Sleeper Train
Practical Extraction and Reporting
A lesson from the sporran market?
Honesty and a friendly welcome goes a long way
DNA to Amino Acid - a sample Perl script
Comparing Alloa and Melksham - stations and services
A lot of exercise this week
Perl from basics
Summer Sundays - days out by train from Swindon on the TransWilts
Why are chefs miserable?
4759 posts, page by page
Link to page ... 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96 at 50 posts per page


This is a page archived from The Horse's Mouth at http://www.wellho.net/horse/ - the diary and writings of Graham Ellis. Every attempt was made to provide current information at the time the page was written, but things do move forward in our business - new software releases, price changes, new techniques. Please check back via our main site for current courses, prices, versions, etc - any mention of a price in "The Horse's Mouth" cannot be taken as an offer to supply at that price.

Link to Ezine home page (for reading).
Link to Blogging home page (to add comments).

You can Add a comment or ranking to this page

© WELL HOUSE CONSULTANTS LTD., 2021: 48 Spa Road • Melksham, Wiltshire • United Kingdom • SN12 7NY
PH: 01144 1225 708225 • EMAIL: info@wellho.net • WEB: http://www.wellho.net • SKYPE: wellho

PAGE: http://www.wellho.net/mouth/3332_DNA ... cript.html • PAGE BUILT: Sun Oct 11 16:07:41 2020 • BUILD SYSTEM: JelliaJamb