category: Utilities

programs:

• birchenv.py - API methods for setting environment variables and platform detection
• birchlib.py - Library functions for BIRCH utilities
• birchscript.py - Library methods for BIRCH install-scripts
• bl_alias.py - For each file whose name begins with target, create a symbGiven a series of paired-end read filenames, replace the leftmost common string with a specified string
• bl_makelinks.py - Create symbolic links to files in another directory
• bl_rename.py - Given a series of filenames, replace the target string with newname string
• blgeneric - run BioLegato with no menus and no canvas (for demonstration purposes)
• bltable - Simple spreadsheet for generic data
• browser.csh - Launch a default browser from another application
• btail.py - Print the contents of a file beginning at line x
• chooseviewer.py - choose a program for viewing a file
• ConfirmBox2 - Opens a popup box with a question and Yes and No buttons.
• delgi.py - remove GI numbers from GenBank flatfiles, in compliance with the NCBI phase out of GI numbers
• DirChooser2 - Opens a file chooser, and prints the fully-qualified path of the selected directory.
• ErrorBox2 - Opens a popup error box with a message and an Okay button.
• guesspairs.py - Given a list of sequencing read files, make a guess as to which pairs of files should be grouped together as left and right read files
• makelinks.sh - Create symbolic links in the current directory, pointing to files in a source directory
• OkayBox2 - Opens a popup box with a message and an Okay button.
• phylip.py - Classes used by Python scripts that run Phylip programs
• pigz - A parallel implementation of gzip for modern multi-processor, multi-core machines
• pyc.py - compile a Python script into bytecode and creates pydoc HTML documentation
• rmlauncher.py - removes platform-specific BIRCH launcher from user's desktop
• ruler - Print a text ruler for use in numbering columns