Jeremy Goecks 23a8b191a7 Extend extract_genomic_dna tool to support GFF/GTF features and custom genomes. For GFF/GTF files, tool provides option to return sequence data for each feature's intervals, which are split across lines in GFF/GTF files. Tool also now accepts sequence data from a history item, enabling the extraction of data from custom genomes. New functional tests added to cover new functionality.

2011-02-10 17:19:40 -05:00

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galaxy

Extend extract_genomic_dna tool to support GFF/GTF features and custom genomes. For GFF/GTF files, tool provides option to return sequence data for each feature's intervals, which are split across lines in GFF/GTF files. Tool also now accepts sequence data from a history item, enabling the extraction of data from custom genomes. New functional tests added to cover new functionality.

2011-02-10 17:19:40 -05:00

galaxy_utils

Make VCF (variant call format) a Galaxy datatype and enable very basic VCF support in trackster. VCF datatype is sniffable and can be converted to summary tree and interval index. In trackster, VCF files are represented as single-base pair feature tracks.

2010-10-06 16:23:55 -04:00

fpconst.py

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log_tempfile.py

Since tempfiles seem to occasionally be left behind, allow logging of

2008-12-23 13:28:27 -05:00

mimeparse.py

Collapsed changeset: Trackster plugged into galaxy with behind-the-scenes indexing of Wiggle, coverage and interval datasets.

2009-03-11 00:29:01 +00:00

pkg_resources.py

Add numpy egg, update bx_python egg (now with 100% more numpy) and include code that allows scrambling to depend on other eggs existing and being importable.

2010-03-15 14:35:35 -04:00

psyco_full.py

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