blastparser.txt

来自「比对算法的具体应用DNA序列分析 ——基因序列 ——基因表达调控信息 寻找基因牵」· 文本 代码 · 共 56 行

***  GENOME EXPLORER HELP FILE  ***

To provide help on using the GUI, and information about how the programs run

Contents

1)  Outline of Function
2)  Parameters loaded from the .inf file (settings menu)
3)  The User Interface
4)  Underlying Method


---  BLAST PARSER ---

---  1)  Outline of Function ---

Inputs native format blast reports, and parses them - extracting just the 
required information.

Can be set to parse all reports to a single file, or each report to it's own file.

Can be set to provide field headers, or not (so that a file of hitIds can be generated
in the exact format for input to fastacmd - to retrieve those sequences from the database)


---  2)  Parameters loaded from the .inf file (settings menu) ---

blastParserInDir      directory in which to open file chooser when browsing for blast 
                      reports
                      
blastParserOutDir     default directory in which to write parsed blast reports

blastParserOutfileExt file extension for all parsed files (.parsed) 


---  3)  The User Interface  ---


select blast output files to summarise
     Use the "add" and "remove" buttons to add/remove files to/from the list box.
     All the files listed will be parsed

select output directory
     Select the directory to which to write all parsed files

select a name for the summary file
     If a single summary file is to be written to include information from ALL 
     selected blast reports, this will be it's name.  The blastParserOutfileExt
     in settings will be added as an extension.

select a field separator character
     Select a character from the drop down list.  This character will separate fields
     in the parsed file for easy import into a spread sheet.  Choose a character that
     does NOT appear in the names / descriptions of your sequences.  '@' is a fairly
     safe bet, or '