Peter Cock
When used on a low resolution monitor with the Jupyter text zoomed for ease of reading, we can probably use a maximum line length of 72 characters in the Python...
Quoting the NCBI mailing list: > We have included two exciting new features in the latest (2.15.0) BLAST release. One will run searches faster for you. The other allows you...
As of #149, each tool has its own test-data/ folder (currently a symlink to the top level shared folder). This means the manifest no longer needs to point at the...
Can we use the new Galaxy Data Manager framework to make it easier to manage the BLAST databases configured via *.loc files? https://wiki.galaxyproject.org/Admin/Tools/DataManagers/
BLAST+ can be used with the NCBI taxonomy files, particularly for building databases - can we tie this into Galaxy's ``ncbi_taxonomy.loc`` allowing versioning vs the current behaviour of implicitly using...
The new NCBI blast database format v5 will like require updates to ``datatypes/blast_datatypes/datatypes_conf.xml`` and then publishing to the ToolShed *and* updating the copy now bundled with Galaxy itself.
There is now BLAST XML v2 as of BLAST+ 2.2.31, which will most likely become a second datatype in Galaxy (especially if it has to be a container style datatype...
The BLAST+ tools offer several ASN.1 based output formats, the most interesting of which is the BLAST archive format introduced in BLAST+ 2.2.24, -outfmt alignment view options: 0 = pairwise,...
Suggested by @hepcat72 https://github.com/peterjc/galaxy_blast/issues/23#issuecomment-574251641 > Also, it appears that the -outfmt options: > * Query-anchored (text/html) > * Flat query-anchored (text/html) > >are for the "no identities" settings. Could you...
Ideally the tabular files from BLAST tools would result in datasets in Galaxy with the column names in the Galaxy metadata. We know the column names from the command line...