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Note
This means the tool can be installed and used to download and install data from ensembl.org necessary to perform the selected set of queries defined below. These queries will produce standard formats. This variant will have a lot of errors!
terminal interface for controlling primary functions
given a config, can get sequences, gff3, and alignments from Ensembl.org
above is transformed to a "local" install via sqlite databases
dump-genes command generates a tsv formatted file for a species
export one-to-one homologs as fasta
display installed data in the terminal
dump alignment segments corresponding to a user provided input list of genomic regions / genes
mask segments of exported alignments for selected feature types (e.g. exons)
Note
Same feature set as above, but now the tool has a test coverage of ~90% and internals have been refactored for clarity. We will call for testers at this point. This variant will have some errors!
Minimal usability
Track progress on the issues page
Robust usability
Track progress on the issues page
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