twobitreader: a fast python package for reading .2bit files

Licensed under Perl Artistic License 2.0

No warranty is provided, express or implied

Run module as script


twobitreader can be imported as a module within python or run as a script from the command line, for example

$ python -m twobitreader example.2bit < example.bed

When run in this mode, twobitreader accepts only one argument, the filename of the .2bit genome, and reads coordinates from stdin in BED format

Output is given in FASTA format to stdout (warnings and errors are issued on stderr) can also be run as a script to fetch a genome by name, for example

$ python -m hg19

which will save hg19.2bit to your current directory

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