on 2011-11-09 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
print	receives a string or a comma-separated list of strings as argument(s) and prints it.
;	indicates end of statement.
=	operator, assigns value.
+	operator, addition.
-	operator, substraction.
*	operator, multiplication.
/	operator, division.
**	operator, exponentation (exponent.txt)
sqrt	[sqrt EXPR] Returns the square root of EXPR. If EXPR is omitted, returns square root of $_ . Only works on non-negative operands.
.	operator, concatenation.
%	operator, modulus.
scalar	single value data.
number	data type.
string	data type.
\	backslash, allows for inserting some control characters, like new line (\n) or tab (\t), otherwise escapes special characters, like \@ , a quote (\") or the backslash character itself (\\)
STDIN	the program's normal input channel.
STDOUT	the program's normal output channel.
STDERR	an output channel for error messages.
<STDIN>	used for reading data from standard input.
chop	removes from argument last character of string.
chomp	removes from argument last character of string if it is return.
perldoc	Look up Perl documentation in pod format. perldoc -f BuiltinFunction, perldoc -q FAQ Keyword
perl -h	prints a summary of the options for running perl.
on 2011-11-16 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
++	operator, autoincrement 1.
--	operator, autodecrement 1.
+=	operator, autoincrement value.
-=	operator, autodecrement value.
.=	operator, autoconcatenate string.
{ }	indicate start/end of block.
@array	data structure, array.
scalar	[scalar EXPR] Forces EXPR to be interpreted in scalar context and returns the value of EXPR. scalar @ary returns the number of elements in @ary.
$#array_name	contains the index value of the last element of @array_name.
foreach	control structure. (foreach00.txt, foreach01.txt, foreach02.txt)
sort	receives a list of variables (or an array) and returns the sorted list. (sortreverse.txt)
reverse	In list context, returns a list value consisting of the elements of LIST in the opposite order. In scalar context, concatenates the elements of LIST and returns a string value with all characters in the opposite order. (sortreverse.txt)
shift	Shifts the first value of the array off and returns it, shortening the array by 1 and moving everything down.
unshift	[unshift ARRAY,LIST] does the opposite of shift: prepends LIST to the front of the array, and returns the new number of elements in the array.
pop	Pops and returns the last value of the array, shortening the array by one element.
push	[push ARRAY,LIST] adds LIST to the end of a given array, and returns the new number of elements in the array.
qw	Quote-like operator. Takes a string as parameter and builds a quoted list. @array = qw{red blue yellow};
printf	[printf FILEHANDLE FORMAT, LIST] receives a string or a comma-separated list of strings as argument(s) and prints it according to format. (printf.txt)
on 2011-11-23 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
@ARGV	predefined, contains data from command line. $ARGV[0] contains the first word from command line, $ARGV[1] the second ...
length	returns length of string.
sub	declares a subroutine, user defined function. (subroutine0.txt, subroutine1.txt, subroutine2.txt, subroutine3.txt, subroutine4.txt, subroutine5.txt)
my	[my EXPR] A "my" declares the listed variables to be local (lexically) to the enclosing block, file, or "eval". (localmy.txt)
our	[my EXPR] An "our" declaration declares a global variable that will be visible across its entire lexical scope, even across package boundaries.
local	[local EXPR] A "local" modifies its listed variables to be "local" to the enclosing block, "eval", or "do FILE" and to any subroutine called from within that block. (localmy.txt)
pragma	A message written into the source code that tells the compiler to compile the program in some fashion that differs from the default method. For example, pragmas may alter the kinds of error messages that are generated or optimize the machine code in some way.
strict	[use strict;] Perl pragma to restrict unsafe constructs. (strict.txt)
warnings	[use warnings;] Perl pragma to control optional warnings. (warnings.txt)
diagnostics	[use diagnostics;] Perl pragma to force verbose warning diagnostics. (diagnostics.txt)
if	control structure.
elsif	control structure.
else	control structure.
cmp	String comparison, returning -1, 0, or 1. (sort.txt)
<=>	Numeric comparison, returning -1, 0, or 1. (sort.txt)
==	numeral comparison operator, equal to.
!=	numeral comparison operator, not equal to.
<	numeral comparison operator, less than.
>	numeral comparison operator, greater than.
<=	numeral comparison operator, less than or equal to.
>=	numeral comparison operator, greater or equal to.
eq	string comparison operator, equal to.
ne	string comparison operator, not equal to.
lt	string comparison operator, less than.
gt	string comparison operator, greater than.
le	string comparison operator, less than or equal to.
ge	string comparison operator, greater or equal to.
ifThenElse	[ (condition) ? true : false;] Compact if-then-else form. (ifThenElse.txt, plural.txt)
unless	control structure.
while	control structure. (controlStructure01.txt)
until	control structure. (controlStructure02.txt)
do	control structure. (controlStructure03.txt)
for	control structure. (controlStructure04.txt)
last	The "last" command is like the "break" statement in C (as used in loops); it immediately exits the loop in question. (loopLast.txt)
next	The "next" command is like the "continue" statement in C; it starts the next iteration of the loop. (loopNext.txt)
exit	[exit EXPR] Evaluates EXPR and exits immediately with that value. If EXPR is omitted, exits with 0 status.
or	Works on numbers and strings. Returns 1 (true) if either of the two operands is true, and null (false) otherwise.
||	Symbolic or. Works on numbers and strings. Returns the value of the true operand if either of the two operands is true, and null (false) otherwise. (symbolicOR.txt )
||=	Assignment symbolic or. Works on numbers and strings. Is a combination of assignment and or operators. Left side variable gets value of right side if left side is false, otherwise keep its own value.
and	Works on numbers and strings. Returns 1 (true) if both operands are true or null (false) otherwise.
not	Works on numbers and strings. Returns 1 (true) if the operand is false and null (false) otherwise.
!	Symbolic not.
on 2011-11-30 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
constant	[use constant ...;] Perl pragma to declare constants. (constant.txt)
defined	[defined EXPR] Returns a Boolean value telling whether EXPR has a value other than the undefined value "undef".
wantarray	Returns true if the context of the currently executing subroutine is looking for a list value. Returns false if the context is looking for a scalar. Returns the undefined value if the context is looking for no value (void context). (wantarray.txt)
sleep	[sleep EXPR] Causes the script to sleep for EXPR seconds, or forever if no EXPR.
$|	[$OUTPUT_AUTOFLUSH] filehandle buffered mode flag. (flush01.txt, flush02.txt)
English	[use English;] Provides aliases for the built-in variables whose names no one seems to like to read. See the perldoc perlvar pages for a complete list of aliases.
redo	The "redo" command restarts the block. (loopRedo.txt)
rand	[rand EXPR] Returns a random fractional number greater than or equal to "0" and less than the value of EXPR. (rand.txt )
srand	[srand EXPR] Sets the random number seed for the "rand" operator. If srand() is not called explicitly, it is called implicitly at the first use of the "rand" operator.
require	[require EXPR] Demands that a library file as named on EXPR be included if it hasn't already been included. (onePiece.txt, require.txt, library.txt )
lib	[use lib LIST;no lib LIST;] Manipulate @INC at compile time. It is typically used to add extra directories to perl's search path so that later "use" or "require" statements will find modules which are not located on perl's default search path. (require01.txt, require02.txt, require03.txt)
sprintf	[sprintf FORMAT, LIST] returns a string formatted by the usual `printf' conventions.
File::Basename	[module] Routines that allow to parse file specifications into useful pieces using the syntax of different operating systems. (basename.txt)
File::Path	[module] create or remove directory trees. (filePath.txt)
FindBin	[module] Locate directory of original perl script. (findbin.txt)
File::Spec::Functions	[module] Portably perform operations on file names (some functions: canonpath, catdir, catfile, file_name_is_absolute, path). For a full reference of available functions, please consult the File::Spec::Unix manpage
on 2011-12-07 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
substr	[substr EXPR,OFFSET,LENGTH,REPLACEMENT] extracts a substring out of a string and returns it. The function receives 3 arguments. A string value, a position on the string (starting to count from 0) and a length. (substr1.txt, substr2.txt, substr3.txt )
join	[join EXPR,LIST] joins the separate strings of LIST into a single string with fields separated by the value of EXPR, and returns that new string. (join.txt)
split	[split /PATTERN/,EXPR,LIMIT] splits a string into a list of strings and returns that list. (split1.txt, split2.txt)
index	[index STR,SUBSTR,POSITION] searches for one string within another. (index.txt)
open	[open FILEHANDLE,EXPR] opens a file or device and associates it with a filehandle. (foreach.txt, while.txt, p53.seq)
close	[close FILEHANDLE] closes the file or device associated with the filehandle. (while.txt, p53.seq)
die	prints the value of LIST to `STDERR' and exits with the current value of `$!' (die.txt)
warn	produces a message on STDERR just like `die', but doesn't exit or throw an exception.
select	[select FILEHANDLE] Returns the currently selected filehandle. Sets the current default filehandle for output, if FILEHANDLE is supplied. (select.txt)
$>	[$EUID $EFFECTIVE_USER_ID] The effective uid of this process. (userinfo.txt)
$<	[$UID $REAL_USER_ID] The real uid of this process. (userinfo.txt)
getpwuid	returns user name from userid, as in $name = getpwuid($EUID). Also ($name,$passwd,$uid,$gid,$quota,$comment,$gcos,$dir,$shell,$expire) = getpwuid($EUID). (userinfo.txt)
$0	[$PROGRAM_NAME] name of current script (userinfo.txt)
file test -r	File is readable by effective uid/gid.
file test -w	File is writable by effective uid/gid.
file test -x	File is executable by effective uid/gid.
file test -R	File is readable by real uid/gid.
file test -X	File is executable by real uid/gid.
file test -O	File is owned by real uid.
file test -e	File exists.
file test -z	File has zero size.
file test -s	File has non-zero size (returns size).
file test -f	File is a plain file.
file test -d	File is a directory.
file test -l	File is a symbolic link.
file test -p	File is a named pipe (FIFO).
file test -S	File is a socket.
file test -b	File is a block special file.
file test -c	File is a character special file.
file test -u	File has setuid bit set.
file test -g	File has setgid bit set.
file test -k	File has sticky bit set.
file test -t	Filehandle is opened to a tty.
file test -T	File is a text file.
file test -B	File is a binary file (opposite of -T).
file test -M	Age of file in days when script started.
file test -A	Age of file in days since last access.
file test -C	Age of file in days since last inode change time.
stat	[stat FILEHANDLE][stat EXPR] Returns a 13-element list giving the status info for a file, either the file opened via FILEHANDLE, or named by EXPR. Example ($dev,$ino,$mode,$nlink,$uid,$gid,$rdev,$size,$atime,$mtime,$ctime,$blksize,$blocks) = stat($filename);
glob	[glob EXPR] Returns the value of EXPR with filename expansions such as the standard Unix shell /bin/csh would do. (glob.txt)
__DATA__	The __DATA__ token tells the perl compiler that the perl code for compilation is finished. Everything after the __DATA__ token is available for reading via the filehandle FOOBAR::DATA, where FOOBAR is the name of the current package when the __DATA__ token is reached. (data.txt)
on 2011-12-14 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
opendir	[opendir DIRHANDLE,EXPR] Opens a directory named EXPR for processing by "readdir" and "closedir". Returns true if successful. (readdir.txt)
readdir	[readdir DIRHANDLE] Returns the next directory entry for a directory opened by "opendir". If used in list context, returns all the rest of the entries in the directory. If there are no more entries, returns an undefined value in scalar context or a null list in list context. (readdir.txt)
closedir	[closedir DIRHANDLE] Closes a directory opened by "opendir" and returns the success of that system call. (readdir.txt)
read	[read FILEHANDLE,SCALAR,LENGTH] Attempts to read LENGTH bytes of data into variable SCALAR from the specified FILEHANDLE. Returns the number of bytes actually read, "0" at end of file, or undef if there was an error. (read.txt)
seek	[seek FILEHANDLE,POSITION,WHENCE] Sets FILEHANDLE's position, The values for WHENCE are 0 to set the new position in bytes to POSITION, 1 to set it to the current position plus POSITION, and 2 to set it to EOF plus POSITION.
$/	[$RS $INPUT_RECORD_SEPARATOR] The input record separator, newline by default. (recordseparator.txt)
$.	[$NR $INPUT_LINE_NUMBER] The current input record number for the last file handle from which you just read(). (recordseparator.txt)
package	Defines a namespace. Default namespace is main (package1.txt, subroutineCall.txt)
splice	[splice ARRAY,OFFSET,LENGTH,LIST] Removes the elements designated by OFFSET and LENGTH from an array, and replaces them with the elements of LIST, if any. In list context, returns the elements removed from the array. In scalar context, returns the last element removed, or "undef" if no elements are removed. (splice.txt)
%hash	data structure (hash01.txt, hash.txt, countTissues)
keys	Returns a list consisting of all the keys of the named hash. In scalar context, returns the number of keys. (keys.txt, hash.txt)
values	Returns a list consisting of all the values of the named hash. In a scalar context, returns the number of values. (values.txt, hash.txt)
each	When called in list context, returns a 2-element list consisting of the key and value for the next element of a hash, so that you can iterate over it. When called in scalar context, returns only the key for the next element in the hash. (hash.txt)
=>	the => operator is just a synonym for a comma. (hash.txt)
delete	[delete EXPR] Given an expression that specifies a hash element, array element, hash slice, or array slice, deletes the specified element(s) from the hash or array. (hash.txt, delete.txt)
undef	[undef EXPR] Undefines the value of EXPR. Always returns the undefined value. (defined.txt)
exists	[exists EXPR] Given an expression that specifies a hash element or array element, returns true if the specified element in the hash or array has ever been initialized, even if the corresponding value is undefined. (codon.txt)
factorial	compares iteration and recursion (fact_iteration.txt, fact_recursion.txt)
on 2011-12-28 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
Fibonacci	computes the series 0 1 1 2 3 5 8 .. (fibo1.txt, fibo2.txt)
reference	A reference is a scalar value that refers to an entire array or an entire hash (or to just about anything else). (ref_sample.txt, ref_array0.txt, ref_array1.txt)
ref	[ref EXPR] Returns a true value if EXPR is a reference, false otherwise. If EXPR is not specified, "$_" will be used. The value returned depends on the type of thing the reference is a reference to. Builtin types include: SCALAR, ARRAY, HASH, CODE, REF, GLOB, LVALUE. (ref_hash.txt, ref_hash2.txt, ref_sub.txt)
Data::Dumper	[module] stringified perl data structures, suitable for both printing and "eval" (datadumper.txt, dataDumperDumper.txt, dataDumperReader.txt, dataDumperReader2.txt)
do	[do EXPR] Uses the value of EXPR as a filename and executes the contents of the file as a Perl script. (do.txt)
eval	[eval EXPR, eval BLOCK] In the first form, the return value of EXPR is parsed and executed as if it were a little Perl program. In the second form, the code within the BLOCK is parsed only once (at the same time the code surrounding the eval itself was parsed) and executed within the context of the current Perl program. (eval.txt)
DB_File	[module] access to Berkeley DB version 1.x (dbfile.txt)
GDBM::File	[module] allows access to the gdbm library. see http://biocourse.weizmann.ac.il/course/prog/dbm/GDBM.html (gdbmfile.txt, phonesGDBM.txt)
dbmopen	[dbmopen HASH,DBNAME,MASK] This binds a dbm(3), ndbm(3), sdbm(3), gdbm(3), or Berkeley DB file to a hash. (dbmCreate.txt, dbmRead.txt, phones.txt )
dbmclose	[dbmclose HASH] Breaks the binding between a DBM file and a hash. (dbmCreate.txt, dbmRead.txt, phones.txt)
on 2012-01-04 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
Storable	[module] persistence for Perl data structures (storable.txt)
YAML::Any	[module] implements the YAML human-readable data serialization format. (yaml1.txt, yaml2.txt)
File::Copy	[module] provides two basic functions, "copy" and "move", which are useful for getting the contents of a file from one place to another. (filecopy.txt)
Fcntl	[module] load the C Fcntl.h defines, Exports LOCK_EX,LOCK_SH,LOCK_NB and LOCK_UN (flock01.txt, flock02.txt)
File::Find	[module] Implements find (traverse a file tree) and finddepth (traverse a directory structure depth-first) (filefind01.txt, filefind02.txt)
Cwd	[module] Implements functions to return the current working directory or the canonical path for a given file/directory (cwd.txt)
Time::Elapse	[module] Perl extension for monitoring time during tasks (timeElapse.txt)
File::Temp	[module] returns name and handle of a temporary file safely (fileTemp.txt)
Date::Calc	[module] Gregorian calendar date calculations (datecalc.txt)
Term::ReadLine	[module] Front end to various 'readline' packages to ease data input (readline.txt)
on 2012-01-11 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
regular expressions	see http://biocourse.weizmann.ac.il/course/prog/regexps/regexps.html (match.txt, sp_list.txt, matchSet.txt, gotamatch1.html)
=~	Pattern binding operator. The left operand is the string to be searched. The right operand is a pattern-match operation (search, substitute, translate) (DNAtoRNA.txt, reverseComplement.txt, trimSpaces1.txt, trimSpaces2.txt, trimSpaces3.txt)
$`,$&,$'	[$PREMATCH,$MATCH,$POSTMATCH] before, hit, after (match01.txt, match02.txt, match03.txt)
tr	[tr/SEARCHLIST/REPLACEMENTLIST/d] Transliterates all occurrences of the characters found in the search list with the corresponding character in the replacement list. It returns the number of characters replaced or deleted.
m	[m/PATTERN/cgimosx;] Searches a string for a pattern match, and in scalar context returns true (1) or false (''). (match04.txt)
pos	[pos SCALAR] Returns the offset of where the last "m//g" search left off for the variable in question ($_ is used when the variable is not specified). (match04.txt)
s	[s/SEARCHpattern/REPLACEMENTpattern/modifier;] Replaces SEARCHpattern by REPLACEMENTpattern. Modifiers are 'i' for case insensitive search, 'g' for global replacement.
on 2012-01-18 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
HTML	http://biocourse.weizmann.ac.il/course/prog/html/barebone.html,http://biocourse.weizmann.ac.il/course/prog/idocsHTMLguide
content-type: text/html	header describing the document MIME type, required by web browsers (mime_type.txt )
REMOTE_ADDR	[$ENV{"REMOTE_ADDR"}] IP address of client computer (env.txt)
PATH	[$ENV{"PATH"}] Lists the set of directories where the operating system will search in order to find and execute a command. (path.txt )
CGI	[module] Simple Common Gateway Interface Class (cgi_submit.gif, cgi01.txt, cgiSend.txt, cgiReceive.txt)
CGI errors	[use CGI::Carp 'fatalsToBrowser';] Sends runtime errors to browser's screen. Useful for debugging purposes.
HTML Forms	An HTML form is a section of a document containing normal content, markup, special elements called controls (checkboxes, radio buttons, menus, etc.), and labels on those controls. Users generally "complete" a form by modifying its controls (entering text, selecting menu items, etc.), before submitting the form to an agent for processing (e.g., to a Web server, to a mail server, etc.) (forms01.txt, forms02.txt, forms03.txt, forms04.txt, forms05.txt, forms06.txt, forms07.txt)
HTML Examples	(created by Moshe Kafri and Niv Antonovsky) (HTML_form/html_example-NA.txt, HTML_form/html_example-NA.html, HTML_form/example1-NA.cgi_txt)
CGI Dump	[print $q->Dump();] CGI method. Produces a string consisting of all the query's name/value pairs formatted nicely as a nested list. Useful for debugging purposes.
CGI names	[@names = $query->param;] fetching the names of all the parameters passed to the script. (cgiNames.txt)
CGI vars	[%vars = $query->Vars;] fetchs the entire parameter list as a hash in which the keys are the names of the CGI parameters, and the values are the parameters' values. (cgiVars.txt)
POST, GET	Methods in HTML Forms. The difference between METHOD="GET" (the default) and METHOD="POST" is primarily defined in terms of form data encoding. If the method is "get", the user agent takes the value of action, appends a ? to it, then appends the form data set, encoded using the application/x-www-form-urlencoded content type. The user agent then traverses the link to this URI. In this scenario, form data are restricted to ASCII codes. If the method is "post", the user agent conducts an HTTP post transaction using the value of the action attribute and a message created according to the content type specified by the enctype attribute.
on 2012-01-22 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
LWP::Simple	[module] simplified view of the libwww-perl library. (lwp1.txt, lwp2.txt, lwp3.txt, getPDBfile.txt)
LWP::UserAgent	[module] is a class implementing a World-Wide Web user agent in Perl. (lwpUserAgent.txt)
HTTP::Request::Common	[module] constructs common HTTP::Request objects (httpRequest.txt)
HTML::LinkExtor	[module] Extract links from an HTML document. (linkextor.txt)
URI	[module] Manages Uniform Resource Identifiers. A Uniform Resource Identifier is a compact string of characters for identifying an abstract or physical resource. (linkextor.txt)
URI::Escape	[module] Escape and unescape unsafe characters. (uriescape.txt)
WWW::Mechanize	[module] helps automate interaction with a website. It supports performing a sequence of page fetches including following links and submitting forms. Each fetched page is parsed and its links and forms are extracted. A link or a form can be selected, form fields can be filled and the next page can be fetched. Mech also stores a history of the URLs you've visited, which can be queried and revisited. (mechanize.txt)
on 2012-01-25 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
Data Structures	http://biocourse.weizmann.ac.il/course/prog/dds
caller	[caller EXPR] Returns the context of the current subroutine call. (caller.txt)
bless	This function tells the element referenced by REF that it is now an object in the CLASSNAME package. If CLASSNAME is omitted, the current package is used. It returns the reference for convenience.
figures	A step by step objects building (object01.E.txt, object02.E.txt, object03.E.txt)
animals	A step by step objects building (animals01.txt, animals02.txt, animals03.txt, animals04.txt, animals05.txt, animals06.txt, animals07.txt, animals08.txt, animals09.txt, animals10.txt, animals11.txt)
sequence	basic sample module for sequence management (moduleSample.tar)
Bioperl	[module] Bioperl is a collection of perl modules that facilitate the development of perl scripts for bioinformatics applications. http://bip.weizmann.ac.il/adp/bioperl/bioSeq/
on 2012-01-29 , other date: 2011-11-09 2011-11-16 2011-11-23 2011-11-30 2011-12-07 2011-12-14 2011-12-28 2012-01-04 2012-01-11 2012-01-18 2012-01-22 2012-01-25 2012-01-29
binmode	[binmode FILEHANDLE] Arranges for FILEHANDLE to be read or written in "binary" mode. Regardless of platform, use binmode() on binary data, like for example images.
GD	[module] Interface to Gd Graphics Library (gd.txt, gd.png)
GD::Graph	[module] Graph Plotting Module (line.txt, line.png, line2.txt, line2.png, 2lines.txt, 2lines.png, area.txt, area.png, bars.txt, bars.png, 2bars.txt, 2bars.png, barsUpDown.txt, barsUpDown.png, pie.txt, pie.png, pie3D.txt, pie3D.png)
Graphics	http://biocourse.weizmann.ac.il/course/prog/graphics/
backtick	[$output = `program`] Executes program. Mainly used to capture program's output. (backtick1.txt, backtick2.txt)
exec	[exec PROGRAM LIST] The "exec" function executes a system command and never returns
system	[system PROGRAM LIST] Does exactly the same thing as `exec LIST', except that a fork is done first, and the parent process waits for the child process to complete.
OPEN (piped)	[open FILEHANDLE,MODE,LIST] (see open above for a general description) If MODE is "'|'", the filename is interpreted as a command to which output is to be piped or as a command which pipes output to us, based on | position. (piped1.txt, piped2.txt)
FASTA	Fasta* is a family of sequence comparison programs. Description http://biocourse.weizmann.ac.il/course/prog/docfasta.html. Command line parameters for running fasta are at http://biocourse.weizmann.ac.il/course/prog/fasta_params.html. (fasta1.txt, fasta2.txt, fasta3.txt, fasta4.txt, fasta5.txt, fasta6.txt, fasta7.txt)
lynx	general purpose distributed information browser for the World Wide Web. Use "lynx -help" to display a complete list of current options. (lynx1.txt)
Benchmark	[module] benchmark running times of Perl code (benchmark.txt)
Javascript	http://biocourse.weizmann.ac.il/course/prog/js/

updated Sat Jan 28 22:22:59 2012, jaime.prilusky@weizmann.ac.il