INFO (1): Links/Blogs/Journals to assist in bioinformatics and programming....

Popular languages...
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Awk: Data extraction and reporting
C: General-purpose
C++: General-purpose, object-oriented
Haskell: General-purpose
HTML(HyperText Markup Language): For webpage creation
Java: General-purpose, object-oriented
Javascript (JS): General-purpose, object-based scripting
julia: 
LaTeX: For TeX typesetting
Lisp:General purpose
Lua: For embedded systems and clients
Matlab: For computation and visualization
GNU Octave : For numerical calculations
Perl: For text manipulation, web development, network programming, GUI development
PHP (Hypertext preprocessor): General-purpose, scripting
Python: General Purpose
Scala: 
SQL: For accessing and manipulating databases
R:Statistics
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Books and links:

'Unix and Perl Primer for Biologists'  by Keith Bradnam & Ian Korf

'Introduction to Linux' by  Machtelt Garrels

'Bash Guide for Beginners' by Machtelt Garrels

'Shell Scripting' by  Steve Parker

'Linux Shell Scripting Cookbook' by Shantanu Tushar & Sarath Lakshman

'The Linux Command Line' by William E. Shotts

'Advanced Bash Scripting Guide' by Mendel Cooper
Handy one-line scripts for awk--------------Eric Pement
Handy one-line scripts for sed--------------Eric Pement
Awk one-liners explained-----------------Peteris Krumins
http://software-carpentry.org

http://www.tutorialspoint.com/
http://www.cyberciti.biz/download/lsst.tar.gz
ftp://ftp.freebsd.org/pub/sys.tar.gz
ftp://ftp.redhat.com/pub/xyz-1rc-i386.rpm
http://xyz.com/abc.iso
http://www.bioinformatics-made-simple.com
gsesoftsolutions.com
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Unix/Linux
http://www.unix.com/
http://linux.about.com/
http://askubuntu.com/
An A-Z Index of the Bash command line forLinux..http://ss64.com/bash/

Basic Shell Commands------https://www-xray.ast.cam.ac.uk/~jss/lecture/computing/notes/

IBM Knowledge Center-------http://www-01.ibm.com/support/knowledgecenter/

Main Lab Directory-----http://www.cs.sjsu.edu/web_mater/cs46b/cs46blab/mainLabDirectory.html
nixCarft------------http://www.cyberciti.biz/

The Linux Documentation Project-------http://tldp.org/

Unix Introduction---------http://www.ee.surrey.ac.uk/Teaching/Unix/unixintro.html

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Shell
http://www.tutorialspoint.com/execute_bash_online.php   (a great online console to practice shell)
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Java
http://picard.sourceforge.net/command-line-overview.shtml
http://www.cs.utexas.edu/~scottm/cs307/codingSamples.htm
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Perl
http://perldoc.perl.org/index.html
http://www.perlmonks.org/
Book by James Tisdalll
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Python
http://www.python.org/doc/humor/
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SQL
http://www.headfirstlabs.com/sql_hands_on/
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Bioinformatics
http://www.1000genomes.org/
http://genome.ucsc.edu/
http://www.homolog.us/
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SDSU
http://www-rohan.sdsu.edu/rohansoft.html
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Forum
https://about.gitlab.com/ (to create, review and deploy code together)
http://unix.stackexchange.com/
http://sourceforge.net/projects/transpose/
http://www.grymoire.com
http://www.thegeekstuff.com/
https://www.biostars.org/
http://quickleft.com/
http://seqanswers.com/
http://stackoverflow.com
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Blogs:
The tree of life---------------- http://phylogenomics.blogspot.com/
Byte Size Biology-----------http://bytesizebio.net/
OpenHelix ---------------------- http://blog.openhelix.eu/
Living in an Ivory Basement--------- http://ivory.idyll.org/blog/
My Biotech Life---------------------http://my.biotechlife.net/
Next-Gen Sequencing-----------------http://nextgenseq.blogspot.com/
Kevin's GATTACA World----------------http://kevin-gattaca.blogspot.com/
YOKOFAKUN--------------http://plindenbaum.blogspot.com.br/
Blue Collar Bioinformatics----------------https://bcbio.wordpress.com/
Bits and Bugs----------------------http://bitsandbugs.org/
BitesizeBio------------------http://bitesizebio.com/
In between lines of code---------https://flxlexblog.wordpress.com/
eurofins--------http://ngs-expert.com/
Getting Genetics Done-----------http://www.gettinggeneticsdone.com/
The Genome Factory-----------http://thegenomefactory.blogspot.it/
EdgeBio------------https://www.edgebio.com/
Homolog.us--------http://www.homolog.us/
NeXT GEN SEEK-----------http://nextgenseek.com/
ColorBasePair-------http://www.colorbasepair.com/
bioinfoblog.it---------http://bioinfoblog.it/
Bioinformatics Tools-----------http://bioinformatictools.blogspot.com/
http://www.catonmat.net/
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Journals:
Briefings in Bioinformatics...........http://bib.oxfordjournals.org/