comparison grep.xml @ 7:d64eace4f9f3 draft

Uploaded

6:8928e6d1e7ba

- **C{2,5}AGC** would match lines with 2 to 5 consecutive Cs followed by AGC
- **TTT.{4,10}AAA** would match lines with 3 Ts, followed by 4 to 10 characters (any characeters), followed by 3 As.
- **^chr([0-9A-Za-z])+** would match lines that begin with chromsomes, such as lines in a BED format file.
- **(ACGT){1,5}** would match at least 1 "ACGT" and at most 5 "ACGT" consecutively.
- **hsa|mmu** would match lines containing "hsa" or "mmu" (or both).
 
-----

**Regular Expression Syntax**

The select tool searches the data for lines containing or not containing a match to the given pattern. A Regular Expression is a pattern descibing a certain amount of text. 

- **( ) { } [ ] . * ? + \ ^ $** are all special characters. **\\** can be used to "escape" a special character, allowing that special character to be searched for.
- **^** matches the beginning of a string(but not an internal line).
- **\\d** matches a digit, same as [0-9].
- **\\D** matches a non-digit.

- **(** .. **)** groups a particular pattern.
- **\\Z** matches the end of a string(but not a internal line).
- **{** n or n, or n,m **}** specifies an expected number of repetitions of the preceding pattern.

  - **{n}** The preceding item is matched exactly n times.
  - **{n,}** The preceding item ismatched n or more times. 
  - **{n,m}** The preceding item is matched at least n times but not more than m times. 

- **[** ... **]** creates a character class. Within the brackets, single characters can be placed. A dash (-) may be used to indicate a range such as **a-z**.
- **.** Matches any single character except a newline.
- ***** The preceding item will be matched zero or more times.
- **?** The preceding item is optional and matched at most once.
- **+** The preceding item will be matched one or more times.
- **^** has two meaning:
  - matches the beginning of a line or string. 
  - indicates negation in a character class. For example, [^...] matches every character except the ones inside brackets.
- **$** matches the end of a line or string.
- **\|** Separates alternate possibilities. 

@REFERENCES@
]]>
    </help>
</tool>

7:d64eace4f9f3

- **C{2,5}AGC** would match lines with 2 to 5 consecutive Cs followed by AGC
- **TTT.{4,10}AAA** would match lines with 3 Ts, followed by 4 to 10 characters (any characeters), followed by 3 As.
- **^chr([0-9A-Za-z])+** would match lines that begin with chromsomes, such as lines in a BED format file.
- **(ACGT){1,5}** would match at least 1 "ACGT" and at most 5 "ACGT" consecutively.
- **hsa|mmu** would match lines containing "hsa" or "mmu" (or both).

-----

**Regular Expression Syntax**

The select tool searches the data for lines containing or not containing a match to the given pattern. A Regular Expression is a pattern descibing a certain amount of text.

- **( ) { } [ ] . * ? + \ ^ $** are all special characters. **\\** can be used to "escape" a special character, allowing that special character to be searched for.
- **^** matches the beginning of a string(but not an internal line).
- **\\d** matches a digit, same as [0-9].
- **\\D** matches a non-digit.

- **(** .. **)** groups a particular pattern.
- **\\Z** matches the end of a string(but not a internal line).
- **{** n or n, or n,m **}** specifies an expected number of repetitions of the preceding pattern.

  - **{n}** The preceding item is matched exactly n times.
  - **{n,}** The preceding item ismatched n or more times.
  - **{n,m}** The preceding item is matched at least n times but not more than m times.

- **[** ... **]** creates a character class. Within the brackets, single characters can be placed. A dash (-) may be used to indicate a range such as **a-z**.
- **.** Matches any single character except a newline.
- ***** The preceding item will be matched zero or more times.
- **?** The preceding item is optional and matched at most once.
- **+** The preceding item will be matched one or more times.
- **^** has two meaning:
  - matches the beginning of a line or string.
  - indicates negation in a character class. For example, [^...] matches every character except the ones inside brackets.
- **$** matches the end of a line or string.
- **\|** Separates alternate possibilities.

@REFERENCES@
]]>
    </help>
</tool>